Sequence Alignment: The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.Sequence Analysis, Protein: A process that includes the determination of AMINO ACID SEQUENCE of a protein (or peptide, oligopeptide or peptide fragment) and the information analysis of the sequence.Software: Sequential operating programs and data which instruct the functioning of a digital computer.Algorithms: A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.Molecular Sequence Data: Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.Amino Acid Sequence: The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.Computational Biology: A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.Phylogeny: The relationships of groups of organisms as reflected by their genetic makeup.Sequence Homology, Amino Acid: The degree of similarity between sequences of amino acids. This information is useful for the analyzing genetic relatedness of proteins and species.Proteins: Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.Databases, Protein: Databases containing information about PROTEINS such as AMINO ACID SEQUENCE; PROTEIN CONFORMATION; and other properties.Sequence Analysis, DNA: A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.Models, Molecular: Models used experimentally or theoretically to study molecular shape, electronic properties, or interactions; includes analogous molecules, computer-generated graphics, and mechanical structures.Conserved Sequence: A sequence of amino acids in a polypeptide or of nucleotides in DNA or RNA that is similar across multiple species. A known set of conserved sequences is represented by a CONSENSUS SEQUENCE. AMINO ACID MOTIFS are often composed of conserved sequences.Internet: A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange.Base Sequence: The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.Evolution, Molecular: The process of cumulative change at the level of DNA; RNA; and PROTEINS, over successive generations.User-Computer Interface: The portion of an interactive computer program that issues messages to and receives commands from a user.Software Validation: The act of testing the software for compliance with a standard.Structural Homology, Protein: The degree of 3-dimensional shape similarity between proteins. It can be an indication of distant AMINO ACID SEQUENCE HOMOLOGY and used for rational DRUG DESIGN.Sequence Analysis: A multistage process that includes the determination of a sequence (protein, carbohydrate, etc.), its fragmentation and analysis, and the interpretation of the resulting sequence information.Sequence Analysis, RNA: A multistage process that includes cloning, physical mapping, subcloning, sequencing, and information analysis of an RNA SEQUENCE.Protein Structure, Tertiary: The level of protein structure in which combinations of secondary protein structures (alpha helices, beta sheets, loop regions, and motifs) pack together to form folded shapes called domains. Disulfide bridges between cysteines in two different parts of the polypeptide chain along with other interactions between the chains play a role in the formation and stabilization of tertiary structure. Small proteins usually consist of only one domain but larger proteins may contain a number of domains connected by segments of polypeptide chain which lack regular secondary structure.Computing Methodologies: Computer-assisted analysis and processing of problems in a particular area.Sequence Homology: The degree of similarity between sequences. Studies of AMINO ACID SEQUENCE HOMOLOGY and NUCLEIC ACID SEQUENCE HOMOLOGY provide useful information about the genetic relatedness of genes, gene products, and species.Computer Graphics: The process of pictorial communication, between human and computers, in which the computer input and output have the form of charts, drawings, or other appropriate pictorial representation.Protein Structure, Secondary: The level of protein structure in which regular hydrogen-bond interactions within contiguous stretches of polypeptide chain give rise to alpha helices, beta strands (which align to form beta sheets) or other types of coils. This is the first folding level of protein conformation.Markov Chains: A stochastic process such that the conditional probability distribution for a state at any future instant, given the present state, is unaffected by any additional knowledge of the past history of the system.Protein Conformation: The characteristic 3-dimensional shape of a protein, including the secondary, supersecondary (motifs), tertiary (domains) and quaternary structure of the peptide chain. PROTEIN STRUCTURE, QUATERNARY describes the conformation assumed by multimeric proteins (aggregates of more than one polypeptide chain).Genomics: The systematic study of the complete DNA sequences (GENOME) of organisms.Computer Simulation: Computer-based representation of physical systems and phenomena such as chemical processes.Databases, Genetic: Databases devoted to knowledge about specific genes and gene products.Sequence Homology, Nucleic Acid: The sequential correspondence of nucleotides in one nucleic acid molecule with those of another nucleic acid molecule. Sequence homology is an indication of the genetic relatedness of different organisms and gene function.Genome: The genetic complement of an organism, including all of its GENES, as represented in its DNA, or in some cases, its RNA.Binding Sites: The parts of a macromolecule that directly participate in its specific combination with another molecule.Databases, Factual: Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.Word Processing: Text editing and storage functions using computer software.Databases, Nucleic Acid: Databases containing information about NUCLEIC ACIDS such as BASE SEQUENCE; SNPS; NUCLEIC ACID CONFORMATION; and other properties. Information about the DNA fragments kept in a GENE LIBRARY or GENOMIC LIBRARY is often maintained in DNA databases.Models, Genetic: Theoretical representations that simulate the behavior or activity of genetic processes or phenomena. They include the use of mathematical equations, computers, and other electronic equipment.Models, Statistical: Statistical formulations or analyses which, when applied to data and found to fit the data, are then used to verify the assumptions and parameters used in the analysis. Examples of statistical models are the linear model, binomial model, polynomial model, two-parameter model, etc.Information Storage and Retrieval: Organized activities related to the storage, location, search, and retrieval of information.Pattern Recognition, Automated: In INFORMATION RETRIEVAL, machine-sensing or identification of visible patterns (shapes, forms, and configurations). (Harrod's Librarians' Glossary, 7th ed)Cloning, Molecular: The insertion of recombinant DNA molecules from prokaryotic and/or eukaryotic sources into a replicating vehicle, such as a plasmid or virus vector, and the introduction of the resultant hybrid molecules into recipient cells without altering the viability of those cells.Amino Acid Motifs: Commonly observed structural components of proteins formed by simple combinations of adjacent secondary structures. A commonly observed structure may be composed of a CONSERVED SEQUENCE which can be represented by a CONSENSUS SEQUENCE.Consensus Sequence: A theoretical representative nucleotide or amino acid sequence in which each nucleotide or amino acid is the one which occurs most frequently at that site in the different sequences which occur in nature. The phrase also refers to an actual sequence which approximates the theoretical consensus. A known CONSERVED SEQUENCE set is represented by a consensus sequence. Commonly observed supersecondary protein structures (AMINO ACID MOTIFS) are often formed by conserved sequences.Likelihood Functions: Functions constructed from a statistical model and a set of observed data which give the probability of that data for various values of the unknown model parameters. Those parameter values that maximize the probability are the maximum likelihood estimates of the parameters.Reproducibility of Results: The statistical reproducibility of measurements (often in a clinical context), including the testing of instrumentation or techniques to obtain reproducible results. The concept includes reproducibility of physiological measurements, which may be used to develop rules to assess probability or prognosis, or response to a stimulus; reproducibility of occurrence of a condition; and reproducibility of experimental results.Software Design: Specifications and instructions applied to the software.Mutagenesis, Site-Directed: Genetically engineered MUTAGENESIS at a specific site in the DNA molecule that introduces a base substitution, or an insertion or deletion.INDEL Mutation: A mutation named with the blend of insertion and deletion. It refers to a length difference between two ALLELES where it is unknowable if the difference was originally caused by a SEQUENCE INSERTION or by a SEQUENCE DELETION. If the number of nucleotides in the insertion/deletion is not divisible by three, and it occurs in a protein coding region, it is also a FRAMESHIFT MUTATION.Programming Languages: Specific languages used to prepare computer programs.Cluster Analysis: A set of statistical methods used to group variables or observations into strongly inter-related subgroups. In epidemiology, it may be used to analyze a closely grouped series of events or cases of disease or other health-related phenomenon with well-defined distribution patterns in relation to time or place or both.RNA: A polynucleotide consisting essentially of chains with a repeating backbone of phosphate and ribose units to which nitrogenous bases are attached. RNA is unique among biological macromolecules in that it can encode genetic information, serve as an abundant structural component of cells, and also possesses catalytic activity. (Rieger et al., Glossary of Genetics: Classical and Molecular, 5th ed)Escherichia coli: A species of gram-negative, facultatively anaerobic, rod-shaped bacteria (GRAM-NEGATIVE FACULTATIVELY ANAEROBIC RODS) commonly found in the lower part of the intestine of warm-blooded animals. It is usually nonpathogenic, but some strains are known to produce DIARRHEA and pyogenic infections. Pathogenic strains (virotypes) are classified by their specific pathogenic mechanisms such as toxins (ENTEROTOXIGENIC ESCHERICHIA COLI), etc.Protein Folding: Processes involved in the formation of TERTIARY PROTEIN STRUCTURE.Database Management Systems: Software designed to store, manipulate, manage, and control data for specific uses.Bacterial Proteins: Proteins found in any species of bacterium.Nucleic Acid Conformation: The spatial arrangement of the atoms of a nucleic acid or polynucleotide that results in its characteristic 3-dimensional shape.Bone Malalignment: Displacement of bones out of line in relation to joints. It may be congenital or traumatic in origin.Multigene Family: A set of genes descended by duplication and variation from some ancestral gene. Such genes may be clustered together on the same chromosome or dispersed on different chromosomes. Examples of multigene families include those that encode the hemoglobins, immunoglobulins, histocompatibility antigens, actins, tubulins, keratins, collagens, heat shock proteins, salivary glue proteins, chorion proteins, cuticle proteins, yolk proteins, and phaseolins, as well as histones, ribosomal RNA, and transfer RNA genes. The latter three are examples of reiterated genes, where hundreds of identical genes are present in a tandem array. (King & Stanfield, A Dictionary of Genetics, 4th ed)Models, Chemical: Theoretical representations that simulate the behavior or activity of chemical processes or phenomena; includes the use of mathematical equations, computers, and other electronic equipment.Mutation: Any detectable and heritable change in the genetic material that causes a change in the GENOTYPE and which is transmitted to daughter cells and to succeeding generations.Artificial Intelligence: Theory and development of COMPUTER SYSTEMS which perform tasks that normally require human intelligence. Such tasks may include speech recognition, LEARNING; VISUAL PERCEPTION; MATHEMATICAL COMPUTING; reasoning, PROBLEM SOLVING, DECISION-MAKING, and translation of language.Amino Acid Substitution: The naturally occurring or experimentally induced replacement of one or more AMINO ACIDS in a protein with another. If a functionally equivalent amino acid is substituted, the protein may retain wild-type activity. Substitution may also diminish, enhance, or eliminate protein function. Experimentally induced substitution is often used to study enzyme activities and binding site properties.Species Specificity: The restriction of a characteristic behavior, anatomical structure or physical system, such as immune response; metabolic response, or gene or gene variant to the members of one species. It refers to that property which differentiates one species from another but it is also used for phylogenetic levels higher or lower than the species.Catalytic Domain: The region of an enzyme that interacts with its substrate to cause the enzymatic reaction.DNA: A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).Protein Binding: The process in which substances, either endogenous or exogenous, bind to proteins, peptides, enzymes, protein precursors, or allied compounds. Specific protein-binding measures are often used as assays in diagnostic assessments.Structure-Activity Relationship: The relationship between the chemical structure of a compound and its biological or pharmacological activity. Compounds are often classed together because they have structural characteristics in common including shape, size, stereochemical arrangement, and distribution of functional groups.Substrate Specificity: A characteristic feature of enzyme activity in relation to the kind of substrate on which the enzyme or catalytic molecule reacts.Crystallography, X-Ray: The study of crystal structure using X-RAY DIFFRACTION techniques. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Sensitivity and Specificity: Binary classification measures to assess test results. Sensitivity or recall rate is the proportion of true positives. Specificity is the probability of correctly determining the absence of a condition. (From Last, Dictionary of Epidemiology, 2d ed)Genetic Variation: Genotypic differences observed among individuals in a population.Expressed Sequence Tags: Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived.Work Simplification: The construction or arrangement of a task so that it may be done with the greatest possible efficiency.Bayes Theorem: A theorem in probability theory named for Thomas Bayes (1702-1761). In epidemiology, it is used to obtain the probability of disease in a group of people with some characteristic on the basis of the overall rate of that disease and of the likelihood of that characteristic in healthy and diseased individuals. The most familiar application is in clinical decision analysis where it is used for estimating the probability of a particular diagnosis given the appearance of some symptoms or test result.Catalysis: The facilitation of a chemical reaction by material (catalyst) that is not consumed by the reaction.Recombinant Proteins: Proteins prepared by recombinant DNA technology.Probability: The study of chance processes or the relative frequency characterizing a chance process.DNA, Complementary: Single-stranded complementary DNA synthesized from an RNA template by the action of RNA-dependent DNA polymerase. cDNA (i.e., complementary DNA, not circular DNA, not C-DNA) is used in a variety of molecular cloning experiments as well as serving as a specific hybridization probe.RNA, Untranslated: RNA which does not code for protein but has some enzymatic, structural or regulatory function. Although ribosomal RNA (RNA, RIBOSOMAL) and transfer RNA (RNA, TRANSFER) are also untranslated RNAs they are not included in this scope.Open Reading Frames: A sequence of successive nucleotide triplets that are read as CODONS specifying AMINO ACIDS and begin with an INITIATOR CODON and end with a stop codon (CODON, TERMINATOR).Entropy: The measure of that part of the heat or energy of a system which is not available to perform work. Entropy increases in all natural (spontaneous and irreversible) processes. (From Dorland, 28th ed)Archaea: One of the three domains of life (the others being BACTERIA and Eukarya), formerly called Archaebacteria under the taxon Bacteria, but now considered separate and distinct. They are characterized by: (1) the presence of characteristic tRNAs and ribosomal RNAs; (2) the absence of peptidoglycan cell walls; (3) the presence of ether-linked lipids built from branched-chain subunits; and (4) their occurrence in unusual habitats. While archaea resemble bacteria in morphology and genomic organization, they resemble eukarya in their method of genomic replication. The domain contains at least four kingdoms: CRENARCHAEOTA; EURYARCHAEOTA; NANOARCHAEOTA; and KORARCHAEOTA.Sarcocystidae: A family of parasitic organisms in the order EIMERIIDAE. They form tissue-cysts in their intermediate hosts, ultimately leading to pathogenesis in the final hosts that includes various mammals (including humans) and birds. The most important genera include NEOSPORA; SARCOCYSTIS; and TOXOPLASMA.DNA Primers: Short sequences (generally about 10 base pairs) of DNA that are complementary to sequences of messenger RNA and allow reverse transcriptases to start copying the adjacent sequences of mRNA. Primers are used extensively in genetic and molecular biology techniques.Base Pairing: Pairing of purine and pyrimidine bases by HYDROGEN BONDING in double-stranded DNA or RNA.ComputersGenome, Human: The complete genetic complement contained in the DNA of a set of CHROMOSOMES in a HUMAN. The length of the human genome is about 3 billion base pairs.Benchmarking: Method of measuring performance against established standards of best practice.Data Compression: Information application based on a variety of coding methods to minimize the amount of data to be stored, retrieved, or transmitted. Data compression can be applied to various forms of data, such as images and signals. It is used to reduce costs and increase efficiency in the maintenance of large volumes of data.Quality Control: A system for verifying and maintaining a desired level of quality in a product or process by careful planning, use of proper equipment, continued inspection, and corrective action as required. (Random House Unabridged Dictionary, 2d ed)Chromosome Mapping: Any method used for determining the location of and relative distances between genes on a chromosome.Monte Carlo Method: In statistics, a technique for numerically approximating the solution of a mathematical problem by studying the distribution of some random variable, often generated by a computer. The name alludes to the randomness characteristic of the games of chance played at the gambling casinos in Monte Carlo. (From Random House Unabridged Dictionary, 2d ed, 1993)Genome, Bacterial: The genetic complement of a BACTERIA as represented in its DNA.Genome, Viral: The complete genetic complement contained in a DNA or RNA molecule in a virus.Data Interpretation, Statistical: Application of statistical procedures to analyze specific observed or assumed facts from a particular study.Computer Communication Networks: A system containing any combination of computers, computer terminals, printers, audio or visual display devices, or telephones interconnected by telecommunications equipment or cables: used to transmit or receive information. (Random House Unabridged Dictionary, 2d ed)Pan troglodytes: The common chimpanzee, a species of the genus Pan, family HOMINIDAE. It lives in Africa, primarily in the tropical rainforests. There are a number of recognized subspecies.Tetraodontiformes: A small order of primarily marine fish containing 340 species. Most have a rotund or box-like shape. TETRODOTOXIN is found in their liver and ovaries.Kinetics: The rate dynamics in chemical or physical systems.Polymerase Chain Reaction: In vitro method for producing large amounts of specific DNA or RNA fragments of defined length and sequence from small amounts of short oligonucleotide flanking sequences (primers). The essential steps include thermal denaturation of the double-stranded target molecules, annealing of the primers to their complementary sequences, and extension of the annealed primers by enzymatic synthesis with DNA polymerase. The reaction is efficient, specific, and extremely sensitive. Uses for the reaction include disease diagnosis, detection of difficult-to-isolate pathogens, mutation analysis, genetic testing, DNA sequencing, and analyzing evolutionary relationships.RNA, Ribosomal: The most abundant form of RNA. Together with proteins, it forms the ribosomes, playing a structural role and also a role in ribosomal binding of mRNA and tRNAs. Individual chains are conventionally designated by their sedimentation coefficients. In eukaryotes, four large chains exist, synthesized in the nucleolus and constituting about 50% of the ribosome. (Dorland, 28th ed)Genes, Overlapping: Genes whose nucleotide sequences overlap to some degree. The overlapped sequences may involve structural or regulatory genes of eukaryotic or prokaryotic cells.Enzyme Stability: The extent to which an enzyme retains its structural conformation or its activity when subjected to storage, isolation, and purification or various other physical or chemical manipulations, including proteolytic enzymes and heat.Nucleotide Motifs: Commonly observed BASE SEQUENCE or nucleotide structural components which can be represented by a CONSENSUS SEQUENCE or a SEQUENCE LOGO.Amino Acids: Organic compounds that generally contain an amino (-NH2) and a carboxyl (-COOH) group. Twenty alpha-amino acids are the subunits which are polymerized to form proteins.Plant Proteins: Proteins found in plants (flowers, herbs, shrubs, trees, etc.). The concept does not include proteins found in vegetables for which VEGETABLE PROTEINS is available.Exons: The parts of a transcript of a split GENE remaining after the INTRONS are removed. They are spliced together to become a MESSENGER RNA or other functional RNA.Biological Evolution: The process of cumulative change over successive generations through which organisms acquire their distinguishing morphological and physiological characteristics.Gene Expression Profiling: The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.Protein Engineering: Procedures by which protein structure and function are changed or created in vitro by altering existing or synthesizing new structural genes that direct the synthesis of proteins with sought-after properties. Such procedures may include the design of MOLECULAR MODELS of proteins using COMPUTER GRAPHICS or other molecular modeling techniques; site-specific mutagenesis (MUTAGENESIS, SITE-SPECIFIC) of existing genes; and DIRECTED MOLECULAR EVOLUTION techniques to create new genes.Hypermedia: Computerized compilations of information units (text, sound, graphics, and/or video) interconnected by logical nonlinear linkages that enable users to follow optimal paths through the material and also the systems used to create and display this information. (From Thesaurus of ERIC Descriptors, 1994)Molecular Sequence Annotation: The addition of descriptive information about the function or structure of a molecular sequence to its MOLECULAR SEQUENCE DATA record.Codon: A set of three nucleotides in a protein coding sequence that specifies individual amino acids or a termination signal (CODON, TERMINATOR). Most codons are universal, but some organisms do not produce the transfer RNAs (RNA, TRANSFER) complementary to all codons. These codons are referred to as unassigned codons (CODONS, NONSENSE).Protein Structure, Quaternary: The characteristic 3-dimensional shape and arrangement of multimeric proteins (aggregates of more than one polypeptide chain).DNA, Intergenic: Any of the DNA in between gene-coding DNA, including untranslated regions, 5' and 3' flanking regions, INTRONS, non-functional pseudogenes, and non-functional repetitive sequences. This DNA may or may not encode regulatory functions.High-Throughput Nucleotide Sequencing: Techniques of nucleotide sequence analysis that increase the range, complexity, sensitivity, and accuracy of results by greatly increasing the scale of operations and thus the number of nucleotides, and the number of copies of each nucleotide sequenced. The sequencing may be done by analysis of the synthesis or ligation products, hybridization to preexisting sequences, etc.DNA, Bacterial: Deoxyribonucleic acid that makes up the genetic material of bacteria.Genes, Bacterial: The functional hereditary units of BACTERIA.Bacteria: One of the three domains of life (the others being Eukarya and ARCHAEA), also called Eubacteria. They are unicellular prokaryotic microorganisms which generally possess rigid cell walls, multiply by cell division, and exhibit three principal forms: round or coccal, rodlike or bacillary, and spiral or spirochetal. Bacteria can be classified by their response to OXYGEN: aerobic, anaerobic, or facultatively anaerobic; by the mode by which they obtain their energy: chemotrophy (via chemical reaction) or PHOTOTROPHY (via light reaction); for chemotrophs by their source of chemical energy: CHEMOLITHOTROPHY (from inorganic compounds) or chemoorganotrophy (from organic compounds); and by their source for CARBON; NITROGEN; etc.; HETEROTROPHY (from organic sources) or AUTOTROPHY (from CARBON DIOXIDE). They can also be classified by whether or not they stain (based on the structure of their CELL WALLS) with CRYSTAL VIOLET dye: gram-negative or gram-positive.Gene Library: A large collection of DNA fragments cloned (CLONING, MOLECULAR) from a given organism, tissue, organ, or cell type. It may contain complete genomic sequences (GENOMIC LIBRARY) or complementary DNA sequences, the latter being formed from messenger RNA and lacking intron sequences.Knee Joint: A synovial hinge connection formed between the bones of the FEMUR; TIBIA; and PATELLA.Mathematical Computing: Computer-assisted interpretation and analysis of various mathematical functions related to a particular problem.Automation: Controlled operation of an apparatus, process, or system by mechanical or electronic devices that take the place of human organs of observation, effort, and decision. (From Webster's Collegiate Dictionary, 1993)Genome, Plant: The genetic complement of a plant (PLANTS) as represented in its DNA.Systems Integration: The procedures involved in combining separately developed modules, components, or subsystems so that they work together as a complete system. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Circular Dichroism: A change from planar to elliptic polarization when an initially plane-polarized light wave traverses an optically active medium. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Neural Networks (Computer): A computer architecture, implementable in either hardware or software, modeled after biological neural networks. Like the biological system in which the processing capability is a result of the interconnection strengths between arrays of nonlinear processing nodes, computerized neural networks, often called perceptrons or multilayer connectionist models, consist of neuron-like units. A homogeneous group of units makes up a layer. These networks are good at pattern recognition. They are adaptive, performing tasks by example, and thus are better for decision-making than are linear learning machines or cluster analysis. They do not require explicit programming.Membrane Proteins: Proteins which are found in membranes including cellular and intracellular membranes. They consist of two types, peripheral and integral proteins. They include most membrane-associated enzymes, antigenic proteins, transport proteins, and drug, hormone, and lectin receptors.Hydrogen Bonding: A low-energy attractive force between hydrogen and another element. It plays a major role in determining the properties of water, proteins, and other compounds.Introns: Sequences of DNA in the genes that are located between the EXONS. They are transcribed along with the exons but are removed from the primary gene transcript by RNA SPLICING to leave mature RNA. Some introns code for separate genes.Evaluation Studies as Topic: Studies determining the effectiveness or value of processes, personnel, and equipment, or the material on conducting such studies. For drugs and devices, CLINICAL TRIALS AS TOPIC; DRUG EVALUATION; and DRUG EVALUATION, PRECLINICAL are available.Escherichia coli Proteins: Proteins obtained from ESCHERICHIA COLI.HMG-Box Domains: DNA-binding domains present in proteins of the HMG-box superfamily including the archetypal HMGB PROTEINS, a number of sequence specific TRANSCRIPTION FACTORS, and other DNA-BINDING PROTEINS. The domains consist of 70-80 amino acids that form an L-shaped fold from three alpha-helical segments. The domain has the capacity to recognize and/or induce specific DNA structures and effect the accessibility of the DNA to other proteins involved in transcription, recombination, or DNA repair. (Note that not all HIGH MOBILITY GROUP PROTEINS contain this domain.)Cattle: Domesticated bovine animals of the genus Bos, usually kept on a farm or ranch and used for the production of meat or dairy products or for heavy labor.Eukaryotic Cells: Cells of the higher organisms, containing a true nucleus bounded by a nuclear membrane.Recombination, Genetic: Production of new arrangements of DNA by various mechanisms such as assortment and segregation, CROSSING OVER; GENE CONVERSION; GENETIC TRANSFORMATION; GENETIC CONJUGATION; GENETIC TRANSDUCTION; or mixed infection of viruses.DNA Mutational Analysis: Biochemical identification of mutational changes in a nucleotide sequence.Oryza sativa: Annual cereal grass of the family POACEAE and its edible starchy grain, rice, which is the staple food of roughly one-half of the world's population.RNA, Bacterial: Ribonucleic acid in bacteria having regulatory and catalytic roles as well as involvement in protein synthesis.Mammals: Warm-blooded vertebrate animals belonging to the class Mammalia, including all that possess hair and suckle their young.Nucleotides: The monomeric units from which DNA or RNA polymers are constructed. They consist of a purine or pyrimidine base, a pentose sugar, and a phosphate group. (From King & Stansfield, A Dictionary of Genetics, 4th ed)DNA Barcoding, Taxonomic: Techniques for standardizing and expediting taxonomic identification or classification of organisms that are based on deciphering the sequence of one or a few regions of DNA known as the "DNA barcode".Saccharomyces cerevisiae: A species of the genus SACCHAROMYCES, family Saccharomycetaceae, order Saccharomycetales, known as "baker's" or "brewer's" yeast. The dried form is used as a dietary supplement.Viral Proteins: Proteins found in any species of virus.Solanaceae: A plant family of the order Solanales, subclass Asteridae. Among the most important are POTATOES; TOMATOES; CAPSICUM (green and red peppers); TOBACCO; and BELLADONNA.Peptides: Members of the class of compounds composed of AMINO ACIDS joined together by peptide bonds between adjacent amino acids into linear, branched or cyclical structures. OLIGOPEPTIDES are composed of approximately 2-12 amino acids. Polypeptides are composed of approximately 13 or more amino acids. PROTEINS are linear polypeptides that are normally synthesized on RIBOSOMES.Synteny: The presence of two or more genetic loci on the same chromosome. Extensions of this original definition refer to the similarity in content and organization between chromosomes, of different species for example.Sequence Deletion: Deletion of sequences of nucleic acids from the genetic material of an individual.Models, Theoretical: Theoretical representations that simulate the behavior or activity of systems, processes, or phenomena. They include the use of mathematical equations, computers, and other electronic equipment.Documentation: Systematic organization, storage, retrieval, and dissemination of specialized information, especially of a scientific or technical nature (From ALA Glossary of Library and Information Science, 1983). It often involves authenticating or validating information.Mutagenesis: Process of generating a genetic MUTATION. It may occur spontaneously or be induced by MUTAGENS.National Library of Medicine (U.S.): An agency of the NATIONAL INSTITUTES OF HEALTH concerned with overall planning, promoting, and administering programs pertaining to advancement of medical and related sciences. Major activities of this institute include the collection, dissemination, and exchange of information important to the progress of medicine and health, research in medical informatics and support for medical library development.Mutagenesis, Insertional: Mutagenesis where the mutation is caused by the introduction of foreign DNA sequences into a gene or extragenic sequence. This may occur spontaneously in vivo or be experimentally induced in vivo or in vitro. Proviral DNA insertions into or adjacent to a cellular proto-oncogene can interrupt GENETIC TRANSLATION of the coding sequences or interfere with recognition of regulatory elements and cause unregulated expression of the proto-oncogene resulting in tumor formation.Histidine: An essential amino acid that is required for the production of HISTAMINE.DNA, Ribosomal: DNA sequences encoding RIBOSOMAL RNA and the segments of DNA separating the individual ribosomal RNA genes, referred to as RIBOSOMAL SPACER DNA.Ligands: A molecule that binds to another molecule, used especially to refer to a small molecule that binds specifically to a larger molecule, e.g., an antigen binding to an antibody, a hormone or neurotransmitter binding to a receptor, or a substrate or allosteric effector binding to an enzyme. Ligands are also molecules that donate or accept a pair of electrons to form a coordinate covalent bond with the central metal atom of a coordination complex. (From Dorland, 27th ed)Archaeal Proteins: Proteins found in any species of archaeon.Carrier Proteins: Transport proteins that carry specific substances in the blood or across cell membranes.Imaging, Three-Dimensional: The process of generating three-dimensional images by electronic, photographic, or other methods. For example, three-dimensional images can be generated by assembling multiple tomographic images with the aid of a computer, while photographic 3-D images (HOLOGRAPHY) can be made by exposing film to the interference pattern created when two laser light sources shine on an object.Molecular Conformation: The characteristic three-dimensional shape of a molecule.Prokaryotic Cells: Cells lacking a nuclear membrane so that the nuclear material is either scattered in the cytoplasm or collected in a nucleoid region.Pseudogenes: Genes bearing close resemblance to known genes at different loci, but rendered non-functional by additions or deletions in structure that prevent normal transcription or translation. When lacking introns and containing a poly-A segment near the downstream end (as a result of reverse copying from processed nuclear RNA into double-stranded DNA), they are called processed genes.DNA, Chloroplast: Deoxyribonucleic acid that makes up the genetic material of CHLOROPLASTS.Dimerization: The process by which two molecules of the same chemical composition form a condensation product or polymer.Surgery, Computer-Assisted: Surgical procedures conducted with the aid of computers. This is most frequently used in orthopedic and laparoscopic surgery for implant placement and instrument guidance. Image-guided surgery interactively combines prior CT scans or MRI images with real-time video.Enzymes: Biological molecules that possess catalytic activity. They may occur naturally or be synthetically created. Enzymes are usually proteins, however CATALYTIC RNA and CATALYTIC DNA molecules have also been identified.Models, Biological: Theoretical representations that simulate the behavior or activity of biological processes or diseases. For disease models in living animals, DISEASE MODELS, ANIMAL is available. Biological models include the use of mathematical equations, computers, and other electronic equipment.Classification: The systematic arrangement of entities in any field into categories classes based on common characteristics such as properties, morphology, subject matter, etc.Transcription Factors: Endogenous substances, usually proteins, which are effective in the initiation, stimulation, or termination of the genetic transcription process.RNA, Ribosomal, 16S: Constituent of 30S subunit prokaryotic ribosomes containing 1600 nucleotides and 21 proteins. 16S rRNA is involved in initiation of polypeptide synthesis.Repetitive Sequences, Nucleic Acid: Sequences of DNA or RNA that occur in multiple copies. There are several types: INTERSPERSED REPETITIVE SEQUENCES are copies of transposable elements (DNA TRANSPOSABLE ELEMENTS or RETROELEMENTS) dispersed throughout the genome. TERMINAL REPEAT SEQUENCES flank both ends of another sequence, for example, the long terminal repeats (LTRs) on RETROVIRUSES. Variations may be direct repeats, those occurring in the same direction, or inverted repeats, those opposite to each other in direction. TANDEM REPEAT SEQUENCES are copies which lie adjacent to each other, direct or inverted (INVERTED REPEAT SEQUENCES).Static Electricity: The accumulation of an electric charge on a objectModels, Structural: A representation, generally small in scale, to show the structure, construction, or appearance of something. (From Random House Unabridged Dictionary, 2d ed)Protein Interaction Mapping: Methods for determining interaction between PROTEINS.Thermodynamics: A rigorously mathematical analysis of energy relationships (heat, work, temperature, and equilibrium). It describes systems whose states are determined by thermal parameters, such as temperature, in addition to mechanical and electromagnetic parameters. (From Hawley's Condensed Chemical Dictionary, 12th ed)Peptide Fragments: Partial proteins formed by partial hydrolysis of complete proteins or generated through PROTEIN ENGINEERING techniques.Plants: Multicellular, eukaryotic life forms of kingdom Plantae (sensu lato), comprising the VIRIDIPLANTAE; RHODOPHYTA; and GLAUCOPHYTA; all of which acquired chloroplasts by direct endosymbiosis of CYANOBACTERIA. They are characterized by a mainly photosynthetic mode of nutrition; essentially unlimited growth at localized regions of cell divisions (MERISTEMS); cellulose within cells providing rigidity; the absence of organs of locomotion; absence of nervous and sensory systems; and an alternation of haploid and diploid generations.Tibia: The second longest bone of the skeleton. It is located on the medial side of the lower leg, articulating with the FIBULA laterally, the TALUS distally, and the FEMUR proximally.Cysteine: A thiol-containing non-essential amino acid that is oxidized to form CYSTINE.Methanococcus: A genus of anaerobic coccoid METHANOCOCCACEAE whose organisms are motile by means of polar tufts of flagella. These methanogens are found in salt marshes, marine and estuarine sediments, and the intestinal tract of animals.Base Composition: The relative amounts of the PURINES and PYRIMIDINES in a nucleic acid.Molecular Structure: The location of the atoms, groups or ions relative to one another in a molecule, as well as the number, type and location of covalent bonds.RNA, Messenger: RNA sequences that serve as templates for protein synthesis. Bacterial mRNAs are generally primary transcripts in that they do not require post-transcriptional processing. Eukaryotic mRNA is synthesized in the nucleus and must be exported to the cytoplasm for translation. Most eukaryotic mRNAs have a sequence of polyadenylic acid at the 3' end, referred to as the poly(A) tail. The function of this tail is not known for certain, but it may play a role in the export of mature mRNA from the nucleus as well as in helping stabilize some mRNA molecules by retarding their degradation in the cytoplasm.Time Factors: Elements of limited time intervals, contributing to particular results or situations.

*  Index-based map-to-sequence alignment in large eukaryotic genomes | bioRxiv
Index-based map-to-sequence alignment in large eukaryotic genomes. Davide Verzotto, Axel ... Index-based map-to-sequence alignment in large eukaryotic genomes Message Subject (Your ... Here we introduce two new map-to-sequence alignment algorithms that efficiently and ... We also introduce an approach for evaluating the significance of alignments that avoids ......
http://biorxiv.org/content/early/2015/03/27/017194
*  Constancea 83.9: Phylogeny of Osmundea
Sequence alignment and phylogenetic analysis DNA sequence alignments were constructed by ... making the 1245 bp alignment unambiguous. The sequence data were analysed using maximum ... Sequence divergences between species of Osmundea ranged from 2.04% (O. blinksii vs. O. ... 2001). We have sequenced eight of the fifteen Osmundea species currently recognized: O. ......
http://ucjeps.berkeley.edu/constancea/83/mcivor_etal/osmundea.html
*  Plus it
Corpet F (1988) Multiple sequence alignment with hierarchical clustering. Nucleic Acids ... Site-directed mutations were then confirmed by automated DNA sequencing by aligning the ... residues were numbered according to their positions in the human AT1 receptor sequence. ... AT1 sequence with multiAlin (Corpet, 1988).. Cell Culture and Transfections. COS-7 cells ......
http://molpharm.aspetjournals.org/content/72/1/182
*  Data from: Phylogenetic relatedness determined between antibiotic resistance...
An alignment of partial 16S rRNA gene sequences of the isolated strains examined in the ... An alignment of 16S rRNA gene sequences. A phylogram constructed by neighbor-joining ... An alignment of the Erm protein sequences. The phylogenies inferred by Bayesian analysis ... An alignment of amino-acid ABC transporter sequences. The phylogenies inferred by ......
http://datadryad.org/resource/doi:10.5061/dryad.td742
*  Forum:Cloning dinosaurs | Jurassic Park wiki | FANDOM powered by Wikia
Alignment of dinosaur sequences.. You may notice the lack of N letters in the code. This ... DNA Sequencing Costs. Data from the NHGRI Genome Sequencing Program. Genome sequencing is ... Scroll down to Sequences producing significant alignments: * Here there is a list with ... Filling sequence gaps What sort of animal DNA should scientists use to fill in sequence ......
http://jurassicpark.wikia.com/wiki/Forum:Cloning_dinosaurs
*  Protease Inhibitors
... view either an alignment of consensus sequences derived from the clones or an alignment ... Sequences may additionally be downloaded in the fasta format, or viewed as individual or ... Sequences matching input query are shown below. Original reference, patient identifier, ... If the user wishes to view individual alignments of isolates for which there are multiple ......
http://hivdb.stanford.edu/cgi-bin/GetIsolateDataResiSubtype.cgi?class=PI&subtype=G&pos=48&cons=G&aa=M&rx=PI&includeMixtures=No
*  Jivamukti yoga
Expect chanting, breath awareness, flowing vinyasa sequences, alignment exploration, ......
http://the-self-centre.co.uk/32-home-page-articles/442-community-discounted-yoga
*  chem-bla-ics: September 2010
Sequence Alignment Algorithms: Applications to Glycans, Trees, and Tree-Like Structures, ... sequence (1) sex (1) shaper (1) side effect (1) signature (1) silver (1) similarity ......
http://chem-bla-ics.blogspot.com/2010_09_01_archive.html
*  Course Catalogue - Bioinformatics 1 (INFR11016)
Biological sequence analysis and alignment. * Bioinformatics resources and databases. * ... There will be tutorial-style sessions where python will be used to perform basic sequence ......
http://drps.ed.ac.uk/17-18/dpt/cxinfr11016.htm
*  Sen1 has unique structural features grafted on the architecture of the Upf1...
Figure EV5. Multiple sequence alignment of the helicase domain of Upf1‐like helicases. ... C. Structure‐based sequence alignment of the "brace" showing the amino acid conservation ... The multiple alignment was done using Clustal Omega, and the conservation was calculated ... rich sequence. Sen1 dissociates ECs paused at the G‐stretch and releases Pol II and the ......
http://emboj.embopress.org/content/early/2017/04/13/embj.201696174.figures-only
*  DNASTAR - Lasergene MegAlign - Multiple and Pairwise Sequence Alignment Software, Phylogeny Software
... DNASTAR. DNASTAR Lasergene. Molecular Biology. Next-Gen Sequencing. Structural Biology. Clinical Research. DNASTAR Cloud. Molecular Biology. Primer Design. Sanger Sequence Assembly. Sequence Alignment. Structural Biology. Epitope Prediction. Protein Sequence & Structure. Protein Structure Prediction. Structural Alignment. Next-Gen Sequencing. Automated Genome Closure. Cancer Genomics. ChIP-Seq Analysis. De Novo Genome Assembly. De Novo Transcriptome Assembly. Exome Alignment. Gene Panels. Reference Guided Genome Alignment. Variant Analysis. Clinical Research. Cancer Genomics. Gene Panels. SUPPORT. Help. FAQs. Request Support. Supported File Formats. Technical Requirements. Tutorials. NGS Support Materials. #1 in NGS Accuracy. Genome Template Packages. Archived Genome Templates. Supported Sequencing Technologies. Genome Assembly. Structure Prediction. Download Free Trial. Request Educational Software. Request Quote. Request Quote. Free Trial. MegAlign Software for DNA and Protein Sequence Alignments and A...
http://dnastar.com/(F(HMrFWH71J2kYo-H2royfYQ6gLE0sKp1GK5-8mGPNJNhOgfSkEbLEKbbJ6_pv7EWT9HVNl3nJ-0Syu40OAoVHZ-BYEXy-nlJ48oGM4yzCvgd0bTZP5zeWxSlSyBZ0-XHqlkRJTzZU7sLR9VLahB7H5LOCBwuorzYmQdhVBEdTV9CWYQXfY1twuxqfNHZS40TaLQWnBq9uHcNddaEL6aJ8qV_J16A1))/t-megalign.aspx
*  Jimin Pei
2006 PROMALS: towards accurate multiple sequence alignments of distantly related proteins Jimin Pei Howard Hughes Medical Institute, The University of Texas Southwestern Medical Center at Dallas, 6001 Forest Park Road, Dallas, TX 75390 9050, USA Bioinformatics 23:802-8. 2007 PROMALS web server for accurate multiple protein sequence alignments Jimin Pei Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, 6001 Forest Park Road, Dallas, Texas 75390 9050, USA Nucleic Acids Res 35:W649-52. 2008 PROMALS3D: a tool for multiple protein sequence and structure alignments Jimin Pei Howard Hughes Medical Institute, Dallas, TX 75390, USA Nucleic Acids Res 36:2295-300. PROMALS: towards accurate multiple sequence alignments of distantly related proteins Jimin Pei Howard Hughes Medical Institute, The University of Texas Southwestern Medical Center at Dallas, 6001 Forest Park Road, Dallas, TX 75390 9050, USA Bioinformatics 23:802-8. PROMALS web server for accurate multiple protein sequence alignm...
http://labome.org/expert/usa/university/pei/jimin-pei-852203.html
*  Sequence alignment programs
... john watson ajwatson at romeo caltech edu fri may est previous message sequence alignment programs next message fermentation newsgroup messages sorted by in article michaelj mcleish f at vcp vcp monash edu au michaelj mcleish at vcp vcp monash edu au michael j mcleish wrote dear netters i am interested in obtaining a program or programs preferably public domain for the alignment of dna and amino acid sequences i would appreciate any advice on the choice of programs available thanks in advance mike michael j mcleish ph d victorian college of pharmacy e mail michael m at vcp monash edu au there s also macaw obtainable by anonymous ftp from ncbi iforget the exact path i haven y played around with it yet so can t offer a personal review from what little i ve seen though it looks pretty good runs on mac s and pc s cheers john watson ajwatson at romeo caltech edu previous message sequence alignment programs next message fermentation newsgroup messages sorted by more information about the proteins mailing list...
http://bio.net/bionet/mm/proteins/1994-May/001271.html
*  Learning Scoring Schemes for Sequence Alignment from Partial ExamplesLearning Scoring Schemes for Se
Learning Scoring Schemes for Sequence Alignment from Partial Examples. Learning Scoring Schemes for Sequence Alignment from Partial Examples. IEEE/ACM Transactions on Computational Biology and Bioinformatics. Learning Scoring Schemes for Sequence Alignment from Partial Examples. When aligning biological sequences, the choice of parameter values for the alignment scoring function is critical. A rigorous way to compute parameter values that are appropriate for aligning biological sequences is through inverse parametric sequence alignment. Eagu Kim, John Kececioglu, "Learning Scoring Schemes for Sequence Alignment from Partial Examples", IEEE/ACM Transactions on Computational Biology and Bioinformatics , vol.5, no. Srinivasan, “PALI: A Database of Alignments and Phylogeny of Homologous Protein Structures,” Nucleic Acids Research, vol. Schrijver, Combinatorial Optimization. 10th Conf. Research in Computational Molecular Biology RECOMB '06 , pp.160-174, 2006. Schrijver, “The Ellipsoid Method a...
http://computer.org/csdl/trans/tb/2008/04/ttb2008040546-abs.html
*  Structural Biochemistry/Bioinformatics/Structural Alignments/Programs Used For Structural Alignment
... - Wikibooks, open books for an open world. Structural Biochemistry/Bioinformatics/Structural Alignments/Programs Used For Structural Alignment. From Wikibooks, open books for an open world. Structural Biochemistry. Structural Alignments. 1 Programs Used for Structural Alignment 2 VMD 3 DALI 4 Combinatorial Extension 5 SSAP 6 MAMMOTH 7 RAPIDO 8 SABERTOOTH 9 BLOSUM 10 TOPOFIT 11 InsightII. Programs Used for Structural Alignment. Certain methods differ in the amount of points that are given to each correct protein alignment and the amount of points deducted from each incorrect protein alignment. This type of method allows maximum amount of points to be granted for alignments which change the structure or function of the protein the least. The points granted for each alignment can be compared to other alignments in order to better understand how closely related certain proteins are to one another in structure or function. VMD uses RMSD structural alignment to compare two structures. DALI involves the breakin...
https://en.wikibooks.org/wiki/Structural_Biochemistry/Bioinformatics/Structural_Alignments/Programs_Used_For_Structural_Alignment
*  ExPASy: SIB Bioinformatics Resource Portal - Resources
Find resources Query all databases - Query within a category: genomics phylogeny/evolution proteomics systems biology - Query a specific database: Cellosaurus ENZYME EPD GPSDB HAMAP miROrtho MyHits OMA OpenFlu OrthoDB PROSITE Protein Spotlight Selectome STRING SWISS-2DPAGE SWISS-MODEL Repository SwissDock SwissLipids SwissVar UniProtKB VenomZone ViralZone World-2DPAGE Repository. Protein. protein sequences and identification mass spectrometry and 2-DE data protein characterisation and function families, patterns and profiles post-translational modification protein structure protein-protein interaction similarity search/alignment genomics. sequence alignment similarity search characterisation/annotation structural bioinformatics. Category all proteomics genomics structural bioinformatics systems biology phylogeny/evolution population genetics transcriptomics biophysics imaging IT infrastructure drug design. a AACompIdent protein identification by aa composition. Agadir Prediction of the helical content of pept...
http://expasy.org/resources
*  CS-BLAST
... {{Infobox Software name = CS-BLAST developer = Angermueller C, Biegert A, and Soeding J latest release version = 2.2.3 latest release date =. latest preview version = 1.1 latest preview date =. 'CS-BLAST' 1. 2 3 Context-Specific BLAST is a protein sequence search tools that extends BLAST Basic Local Alignment Search Tool, {{ cite journal. title = Basic local alignment search tool. Basic Local Alignment Search Tool by context-specific mutation probabilities. 'CSI-BLAST' Context-Specific Iterated BLAST is the context-specific analog of PSI-BLAST. 4 Position-Specific Iterated BLAST. CS-BLAST and CSI-BLAST are available as web-server. Method Performance See also References External links. For aligning two protein sequences, BLAST uses substitution matrix mutation probabilities which only depend on a single amino-acid. The mutation probabilities of an amino-acid, however, are constrained by its structural context: a lysine in an amphipathic alpha helix stabilizes the protein structure and is less likely to mu...
https://en.wikipedia.org/wiki/CS-BLAST
*  Sequence alignment software ?
sequence alignment software sequence alignment software gilles vachon vachon at bio grenet fr wed sep est previous message casio boss sf next message sequence alignment software messages sorted by hi all i recently had to align several sequences dna or proteins and found out that it was not that easy and that we did not have a sofware to do so on macintosh could someone tell me if such a software exist or give me the name or send me a software to align several sequences thanks for your help please send also replies to me directly as i am not a current member on this net gilles vachon c o pr mache laboratoire de biologie moleculaire vegetale cermo eme etage universite j fourier bp x grenoble cedex france tel fax e mail vachon at bio grenet fr previous message casio boss sf next message sequence alignment software messages sorted by more information about the bio soft mailing list...
http://bio.net/bionet/mm/bio-soft/1994-September/008731.html
*  Manual multiple sequence alignment
... hmjaeck at aol com hmjaeck at aol com wed mar est previous message afm microscopy software pkgs next message manual multiple sequence alignment messages sorted by we are currently using the esee program to manually align dna or peptide sequences however this program runs only under ms dos and is therefore a little bit hard to usae is there a windows program that allows the manual alignment of multiple sequences previous message afm microscopy software pkgs next message manual multiple sequence alignment messages sorted by more information about the bio soft mailing list...
http://bio.net/bionet/mm/bio-soft/1997-March/016483.html
*  T-COFFEE Multiple Sequence Alignment Server
... T-Coffee Server Home. History. Tutorial. References. Contacts. Projects. Download. Align Protein sequences Structural alignments Expresso Combine popular aligners M-Coffee Transmembrane proteins TM-Coffee Homology extension PSI-Coffee. Align RNA sequences Secondary structure R-Coffee Tertiary structure SARA-Coffee Combine popular aligners M-Coffee. Align DNA sequences Combine popular aligners M-Coffee Homologous promoter regions Pro-coffee. Evaluation. TCS Evaluates your Alignment and outputs a Colored version indicating the local reliability. Cite. iRMSD-APDB Evaluates Multiple Sequence Alignment using structural information with APDB and iRMSD. Cite. T-RMSD Allows fine-grained structural clustering of a given group of related protein domains. Cite. Strike Evaluation of protein MSAs using a single 3D structure. Cite. Other. Advanced Run your alignment using full featured T-Coffee options. Cite. All All available T-Coffee methods. Useful links. Google Group Support and discussion group. tcoffee.org. Find...
http://tcoffee.crg.cat/
*  Amino Acid Sequence Alignment Tutorial Using the Expasy Server
... Sequence alignment tutorial: Part I. earlier amino acid sequence alignment may be be rather simple to perform, but may also need some extra attention, for example in cases when the proteins have considerably diverged and there is a large number of insertions and deletions, or in cases of multidomain proteins, especially if not all domains are present in one of the proteins being compared, something which could happen for example during. We start with a case of a protein of highly conserved sequence - subunit BchI of the enzyme magnesium chelatase. In the second tutorial we will go through a slightly more complicated case and will first identify the part of the second subunit of magnesium chelatase BchD, which is homologous to subunits BchI, then we will make an alignment to be able to closer examine the conservation pattern in the two proteins. A proper sequence alignment is central for homology modeling, and the alignments here will be used later in the. homology modeling tutorial. To perform the alignm...
http://proteinstructures.com/Sequence/Sequence/alignment-tutorial.html
*  Debian -- Details of package med-bio in wheezy
... package names descriptions source package names package contents. Links for med-bio. Similar packages:. Debian Med micro-biology packages. This metapackage will install Debian packages related to molecular biology, structural biology and bioinformatics for use in life sciences. Tags : Field: Biology, Role: Metapackage, Application Suite: Debian. dep: med-config = 1.13.2 Debian Med general config package. retrieval of DNA or protein sequences. multiple sequence alignment editor. Molecular Simulator for GNUstep. program to perform phylogeny-based association and localization analysis. Protein multiple alignment by sequence annealing. Programs for the removal of noise from 454 sequenced PCR amplicons. analysis of ligand binding to protein structure. docking of small molecules to proteins. pre-calculate binding of ligands to their receptor. free molecular modeling and molecular graphics tool. suite of utilities for comparing genomic features. ultrafast memory-efficient short read aligner. ultrafast memory-ef...
https://packages.debian.org/bg/wheezy/amd64/med-bio
*  Grishin Lab: Software
... Grishin Lab Software and Services. SFESA server refines pairwise protein sequence alignments using a combination of sequence and structural scoring by locally shifting secondary structure elements. Proteins 83 3 : 411-427 PMID: 25546158. Bioinformatics 29 20 : 2647-2648 PMID: 23918248. Reference : Li W, Cong Q, Kinch LN, Grishin NV. BMC Bioinformatics 14 : 30 PMID: 23356573. Reference : Cong Q, Grishin NV. BMC Biology 10 1 : 82 PMID: 23031578. PROMALS3D is a multiple sequence and structure alignment program. Reference : J.Pei, B.H.Kim, and N.V.Grishin 2008 "PROMALS3D: a tool for multiple protein sequence and structure alignments." Nucleic Acids Res. 36 7 : 2295-2300 PMID: 18287115. Reference : Cong Q, Kinch LN, Pei J, Shi S, Grishin VN, Li W, Grishin NV. Bioinformatics 27 24 : 3371-3378 PMID: 21994223. A program to delineate linear secondary structure elements from protein spatial structures. Reference : I.Majumdar, S.S.Krishna, and N.V.Grishin 2005 "PALSSE: A program to delineate linear secondary struct...
http://prodata.swmed.edu/Lab/Software.htm
*  T-Coffee
latest preview version = 11.00.d27cadf latest preview date = 'T-Coffee' 'T'ree-based 'C'onsistency 'O'bjective 'F'unction 'F'or alignment 'E'valuation is a multiple sequence alignment software using a progressive approach. It can also combine multiple sequences alignments obtained previously and in the latest versions can use structural information from PDB files 3D-Coffee. Comparisons with other alignment software Variations Evaluation See also References External links. While the default output is a Clustal-like format, it is sufficiently different from the output of ClustalW/X that many programs supporting Clustal format cannot read it; fortunately ClustalX 'can' import T-Coffee output so the simplest fix for this issue is usually to import T-Coffee's output into ClustalX and then re-export. Another possibility is to request the strict Clustalw output format with the option " -output=clustalw aln ". In its latest version, T-Coffee can be used to combine protein sequences and structures, RNA sequences and s...
https://en.wikipedia.org/wiki/T-Coffee
*  Sequence alignments -- where to chop?
Sequence alignments -- where to chop. Sequence alignments -- where to chop. higgins at ebi.ac.uk higgins at ebi.ac.uk. Thu Apr 18 05:45:02 EST 1996. Previous message: Sequence alignments -- where to chop. Next message: Sequence alignments -- where to chop. Messages sorted by:. In article wblank.1180078558B at news.srv.ualberta.ca, wblank at gpu.srv.ualberta.ca Panhead McNipper writes: Just trying to figure out the most appropriate course of action... I want to place 16S sequences obtained in our lab on a tree with closely related sequences from GenBank, but one of them isn't complete e.g. a string of about 60 Ns between nucleotides 940-1000. Should I: A go ahead anyway. B cut the offending region out of all the sequences in the alignment. C leave the incomplete sequence out entirely. I plan to go ahead with option B 60 bases out of 1400-some isn't too much info lost, is it. Hi Wally: There are advantages and disadvantages to all three :-. A similar argument applies to full length sequences that are so dista...
http://bio.net/bionet/mm/mol-evol/1996-April/004319.html
*  Debian -- Details of package bioperl-run in wheezy
... / Packages / wheezy oldstable / science / bioperl-run. package names descriptions source package names package contents. Package: bioperl-run 1.6.9-1. Links for bioperl-run. Download Source Package bioperl-run :. Homepage Similar packages:. science-engineering-dev. science-mathematics-dev. Contains scripts from the BioPerl-Run package. This package will also install all wrappable applications packaged in Debian. The ones that are not Free are Suggested by this package. Other Packages Related to bioperl-run. dep: bioperl >= 1.6.0 Perl tools for computational molecular biology. Protein multiple alignment by sequence annealing. suite of utilities for comparing genomic features. ultrafast memory-efficient short read aligner. global multiple nucleotide or peptide sequence alignment. european molecular biology open software suite. generic tool for pairwise sequence comparison. profile hidden Markov models for protein sequence analysis. inference of RNA secondary structural alignments. Globa...
https://packages.debian.org/sv/wheezy/bioperl-run
*  Automotive Equipment Wheel Alignment, Automotive Equipment Wheel Alignment Suppliers and Manufacture
... rs at Alibaba.com. For Suppliers. wheel alignment. automotive equipment wheel alignment 5,862 Results. Minimum Order:. Compare. SUNSHINE 3D wheel alignment equipment, automotive equipment Yantai Haide Science And Technology Co., Ltd. 1 Set Min. Order. Contact Supplier. Tags: Automotive Equipment. Compare. 2015 car repair equipment, 3d wheel alignment / car alignment ... US $4550-8999 1 Set Min. Order. Contact Supplier. Tags: Wheel Balancing Equipment. 3d Wheel Alignment. Compare. 1 Set Min. Order. Contact Supplier. Tags: 3d Wheel Alignment. Wheel Aligner. Aligner. Compare. Manufacture automotive equipment 3D wheel alignment Shanghai Dingsheng Automotive Equipment Co., Ltd. Order. Contact Supplier. Tags: Manufacture Automotive Equipment 3d Wheel Alignment. Manufacture Automotive Equipment 3d Wheel Alignment. Manufacture Automotive Equipment 3d Wheel Alignment. Compare. Tags: Cwa78s Automotive Equipment Wheel Alignment With Automatic Control Pole. 4 Tyre Aligner Equipment : automotive Equipment Wheel Aligne...
http://alibaba.com/showroom/automotive-equipment-wheel-alignment.html
*  ESyPred3D
... 'ESyPred3D' is an automated homology modeling program. The method gets the benefit of the increased alignment performances of an alignment strategy that uses neural networks. Alignments are obtained by combining, weighting and screening the results of several multiple alignment programs. The final three-dimensional structure is built using the modeling package MODELLER. Steps Template selection. Sequence alignment. Model generation and loop modeling. Model assessment. Usage See also References External links. Steps. The usual four steps of homology modeling are executed:. search for a template similar sequence of known structure, align query and template sequences, build the 3D model using the last alignment and the structure of the template and assess the final 3D model. Template selection. The template is the first PDB hit found by using maximum four PSI-BLAST iterations in the NCBI nr data bank. Sequence alignment. The query and the template sequences are aligned using a consensus alignment method. Di...
https://en.wikipedia.org/wiki/ESyPred3D
*  RILogo web server : Submit
... RILogo creates RNA-RNA interaction logos for two RNAs. The input are either two single sequences or two multiple sequence alignments with annoation of intra- or intermolecular base pairing between the two RNAs. RILogo displays sequence conservation by a sequence logo for each RNA and structure conservation by the mutual information of the secondary structure base pairings. Multiple Sequence Alignment*. Enter your multiple sequence alignment with structure annotation here. Either use the text area or upload a file. In Clustal and Fasta format, the secondary structure annotation must have the sequence name structure. Upload alignment file:. 2nd Multiple Sequence Alignment. Either use the text area or upload a file. Upload alignment file:. TreeMI W+P TreeMI MI W+P MI. Specify a custom phylogenetic tree for the sequences in the alignment. Either use the text area or upload a file. Upload tree file:. Only for treeMI and treeMI W+P. % Start/end colors RGB hex format of the color gradient for the mutual informa...
http://rth.dk/resources/rilogo/
*  HH-suite
It contains programs that can search for similar protein sequences in protein sequence databases. To predict the function, structure, or other properties of a protein for which only its sequence of amino acids is known, the protein sequence is compared to the sequences of other proteins in public databases. HHsearch takes as input a multiple sequence alignment or a profile hidden Markov Model HMM and searches a database of profile HMMs for homologous related proteins. HHsearch is often used for homology modeling, that is, to build a model of the structure of a query protein for which only the sequence is known: For that purpose, a database of proteins with known structures such as the protein data bank is searched for "template" proteins similar to the query protein. If such a template protein is found, the structure of the protein of interest can be predicted based on a pairwise sequence alignment of the query with the template protein sequence. It can build high-quality multiple sequence alignment s MSAs st...
https://en.wikipedia.org/wiki/HH-suite
*  ProAnWin - Protein Analyst for Windows available at IUBio archive
... Alexy Eroshkin eroshkin at vector.nsk.su. Thu Oct 31 06:33:53 EST 1996. Previous message: no subject. Next message: Using IL-2 with Triple Combination Messages sorted by:. Our recent program ProAnWin, Protein Analyst for Windows 3.11/95, is now available at iubio.bio.indiana.edu, in directory /molbio/ibmpc/ as paw.exe. Access to iubio by ftp, http, and gopher methods are supported. ProAnWin is an application for multiple protein sequence alignment automatic and manual, comparative sequence analysis, studying protein structure-activity genotype - phenotype relationships and designing site-directed mutagenesis with 3D structire viewer. The program does: input of sequences from several formats SWISS-PROT, PIR, FASTA, GCG, CLUSTAL and 3D structure in PDB format; flexible multiple protein sequences alignment and threading sequences into known 3D structure ClustalV + manual alignment ; input of user-defined protein activities, properties or related phenotypes with possibility to transform activity: log x, 1/x,...
http://bio.net/bionet/mm/immuno/1996-October/008889.html
*  EMBL-ALIGN: New Public Alignment Database
... Evelyn Camon camon at ebi.ac.uk. Previous message: Plant Genomics Conference in China II Next message: ICSB2001 FINAL CALL FOR PAPERS Messages sorted by:. European Bioinformatics Institute EBI Hinxton -JUL 10, 2001 **New Public Alignment Database and Web Submission Tool** =================================================================== *EMBL-Align Database - a repository for nucleotide and protein alignments generated from phylogenetic and population studies http://srs.ebi.ac.uk/ *WEBIN-Align Tool - New web based tool for Submission, Annotation and Display of Sequence Alignment Data http://www.ebi.ac.uk/embl/Submission/ =================================================================== To satisfy a growing need for the permanent electronic storage of secondary alignment data from comparative genomics and phylogenetics, the EMBL group are pleased to announce the launch of a new public alignment database, 'EMBL-Align' and web based alignment submission tool, 'WEBIN-Align'. This new tool and database ha...
http://bio.net/bionet/mm/bionews/2001-July/005423.html
*  Fast statistical alignment
... fsa is a multiple sequence alignment program for aligning many proteins or rnas or long genomic dna sequences along with muscle and mafft fsa is one of the few sequence alignment programs which can align datasets of hundreds or thousands of sequences fsa uses a different optimization criterion which allows it to more reliably identify non homologous sequences than these other programs although this increased accuracy comes at the cost of decreased speed fsa is currently being used for projects including sequencing new worm genomes and analyzing in vivo transcription factor binding in flies input output this program accepts sequences in fasta format and outputs alignments in fasta format or stockholm format references external links category bioinformatics...
https://en.wikipedia.org/wiki/Fast_statistical_alignment
*  HomoloGene - NCBI
... NCBI. Resources. All Resources. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. SNP Submission Tool. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. All Domains Structures Resources... All Genes Expression Resources... PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Proteins Proteins used in sequence comparisons and their conserved domain architectures. Show Multiple Alignment Show Pairwise Alignment Scores Pairwise alignments generated using BLAST Re...
http://ncbi.nlm.nih.gov/homologene?LinkName=pubmed_homologene&from_uid=19846417
*  Mixia osmundae IAM 14324 DNA, contig00025, whole genome shotgun sequen - Nucleotide - NCBI
... NCBI. PubChem Structure Search. DNA RNA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Genome Workbench. Nucleotide Database. Primer-BLAST. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Genome Workbench. Primer-BLAST. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genome Workbench. All Genes Expression Resources... PubMed. Genomes Maps. Genome Workbench. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook U...
http://ncbi.nlm.nih.gov/nuccore/358060562?report=genbank
*  Protein Links for PubMed (Select 8754776) - Protein - NCBI
Protein Links for PubMed Select 8754776 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identica...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein&from_uid=8754776
*  Homo sapiens cDNA, FLJ18308 - Nucleotide - NCBI
... NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. GenBank. Nucleotide Database. Primer-BLAST. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. Primer-BLAST. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genes Expression. All Genes Expression Resources... PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Format Summary GenBank GenBank full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession Li...
http://ncbi.nlm.nih.gov/nuccore/AK311266
*  Mus musculus strain C57BL/6J chromosome 14, GRCm38.p3 C57BL/6J - Nucleotide - NCBI
NCBI. PubChem Structure Search. DNA RNA. BLAST Basic Local Alignment Search Tool. Nucleotide Database. Primer-BLAST. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. Primer-BLAST. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genes Expression. All Genes Expression Resources... PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Run BLAST Find regions of similarity between this sequence and other s...
http://ncbi.nlm.nih.gov/nuccore/NC_000080?from=59221417&to=59221575&report=fasta
*  Homo sapiens ATP synthase, H+ transporting, mitochondrial F1 complex, - Nucleotide - NCBI
... NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. Nucleotide Database. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genes Expression. Gene Expression Omnibus GEO Database. All Genes Expression Resources... PubMed. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Homo sapiens ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle, mRNA cDNA clone IMAGE:5551233, ...
http://ncbi.nlm.nih.gov/nuccore/BC035703
*  Escherichia coli O157:H7 str. EC4486 gcontig 1106603634642, whole geno - Nucleotide - NCBI
... NCBI. DNA RNA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Primer-BLAST. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Primer-BLAST. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Gene Expression Omnibus GEO Database. PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. EC4486 gcontig 1106603634642, whole genome shotgun sequence GenBank: ABHS01000035.1 FASTA Graphics...
http://ncbi.nlm.nih.gov/nuccore/159531322?report=genbank
*  Arabidopsis thaliana homogalacturonan alpha-1,4-galacturonosyltransfer - Nucleotide - NCBI
... NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. Nucleotide Database. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genes Expression. All Genes Expression Resources... PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Basic Features Default features Gene, RNA, and CDS features only Features added by NCBI 2 conserved domains. Run BLAST Find regions of similarity between this...
http://ncbi.nlm.nih.gov/nuccore/86611464
*  Mus musculus strain C57BL/6J chromosome 2, GRCm38.p3 C57BL/6J - Nucleotide - NCBI
NCBI. PubChem Structure Search. DNA RNA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Primer-BLAST. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Primer-BLAST. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genes Expression. All Genes Expression Resources... PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Run BLAST Find regions of similarity be...
http://ncbi.nlm.nih.gov/nuccore/NC_000068?from=174297862&to=174346388&report=graph
*  Related Sequences for Protein (Select 371927568) - Protein - NCBI
Related Sequences for Protein Select 371927568 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Influenza Virus. Nucleotide Database. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Domains Structures Resources... Influenza Virus. PubMed. Genomes Maps. Influenza Virus. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ...
http://ncbi.nlm.nih.gov/protein?LinkName=protein_protein&from_uid=371927568
*  Nucleotide (Weighted) Links for PubMed (Select 15744041) - Nucleotide - NCBI
Nucleotide Weighted Links for PubMed Select 15744041 - Nucleotide - NCBI. NCBI. BLAST Basic Local Alignment Search Tool. GenBank. BLAST Basic Local Alignment Search Tool. Format Summary GenBank GenBank full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X11, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X10, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X9, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X8, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X6, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X5, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH domain containing 4 FGD4, transcript variant X4, mRNA. PREDICTED: Homo sapiens FYVE, RhoGEF and PH ...
http://ncbi.nlm.nih.gov/nuccore?LinkName=pubmed_nuccore_weighted&from_uid=15744041
*  Pfam: Sequence alignment for CL0236
pfam sequence alignment for cl sequence alignment for cl this alignment is coloured according to the clustalx colouring scheme glycine g proline p small or hydrophobic c a v l i m f w hydroxyl or amine amino acids s t n q charged amino acids d e r k histidine or tyrosine h y for uniprot based alignments we also add some additional mark up to the alignments where appropriate active site information is shown as follows active site residue annotated in swissprot as an active site predicted active site residue aligns in a pfam alignment with a swissprot active site predicted active site residue annotated in swissprot as a potential active site some uniprot sequences can be mapped to protein structures in which case we also show the secondary structure definition these lines are shown below the sequence to which they apply and are marked ss the meaning of each of the symbols is as follows c random coil h alpha helix g helix i pi helix e hydrogen bonded beta strand extended strand b residue in isolated beta bridge ...
http://pfam.xfam.org/clan/CL0236/alignment
*  Related Sequences for Protein (Select 224071976) - Protein - NCBI
Related Sequences for Protein Select 224071976 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Start Year Start Month Start Day to...
http://ncbi.nlm.nih.gov/protein?LinkName=protein_protein&from_uid=224071976
*  Protein (Weighted) Links for PubMed (Select 11395416) - Protein - NCBI
Protein Weighted Links for PubMed Select 11395416 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Reference Sequence RefSeq. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Domains Structures Resources... Genetic Testing Registry. PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxo...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_weighted&from_uid=11395416
*  Protein (Weighted) Links for PubMed (Select 11812557) - Protein - NCBI
Protein Weighted Links for PubMed Select 11812557 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Reference Sequence RefSeq. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Domains Structures Resources... Genetic Testing Registry. PubMed. Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxo...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_weighted&from_uid=11812557
*  Protein (RefSeq) Links for PubMed (Select 1851123) - Protein - NCBI
Protein RefSeq Links for PubMed Select 1851123 - Protein - NCBI. NCBI. Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. All Domains Structures Resources... PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Prote...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_refseq&from_uid=1851123
*  unnamed protein product [Homo sapiens] - Protein - NCBI
unnamed protein product - Protein - NCBI. NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. PubChem Structure Search. Domains Structures. Conserved Domain Search Service CD Search. All Domains Structures Resources... Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Run BLAST Find regions of similarity between this sequence and other sequences using BLAST. Identify Conserved Domains View conserved domains detected in this protein sequence using CD-search. Pre-computed sequence similarity results BLAST including a...
http://ncbi.nlm.nih.gov/protein/194385906
*  Protein (RefSeq) Links for PubMed (Select 11154694) - Protein - NCBI
Protein RefSeq Links for PubMed Select 11154694 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. Sort ...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_refseq&from_uid=11154694
*  Protein (RefSeq) Links for PubMed (Select 11875054) - Protein - NCBI
Protein RefSeq Links for PubMed Select 11875054 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. Sort ...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_refseq&from_uid=11875054
*  Protein (RefSeq) Links for PubMed (Select 16015338) - Protein - NCBI
Protein RefSeq Links for PubMed Select 16015338 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. Sort ...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_refseq&from_uid=16015338
*  Protein (RefSeq) Links for PubMed (Select 20493809) - Protein - NCBI
Protein RefSeq Links for PubMed Select 20493809 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. Sort ...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_refseq&from_uid=20493809
*  Protein (RefSeq) Links for PubMed (Select 8670905) - Protein - NCBI
Protein RefSeq Links for PubMed Select 8670905 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. Sort b...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_refseq&from_uid=8670905
*  Protein Links for PubMed (Select 23285035) - Protein - NCBI
Protein Links for PubMed Select 23285035 - Protein - NCBI. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. All Domains Structures Resources... PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identi...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein&from_uid=23285035
*  alpha-1,6-glucosidase, pullulanase-type [Streptomyces sp. ACT-1] - Protein - NCBI
NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. PubChem Structure Search. Domains Structures. Conserved Domain Search Service CD Search. All Domains Structures Resources... PubMed. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. Identify Conserved Domains View conserved domains detected in this protein sequence using CD-search. Pre-computed seq...
http://ncbi.nlm.nih.gov/protein/326660058?report=genpept
*  Algorithms for intravenous insulin delivery. - PubMed - NCBI
... Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Domains Structures Resources... PubMed. All Genetics Medicine Resources... Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Stru...
http://ncbi.nlm.nih.gov/pubmed/18690908
*  The organization and financing of kidney dialysis and transplant care in the United States of Americ
... a. - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Genome Workbench. Nucleotide Database. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Genome Workbench. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Domains Structures Resources... Gene Expression Omnibus GEO Database. Genome Workbench. PubMed. All Genetics Medicine Resources... Genomes Maps. Genome Workbench. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM...
http://ncbi.nlm.nih.gov/pubmed/17602296
*  The leukemia-associated protein Btg1 and the p53-regulated protein Btg2 interact with the homeoprote
... in Hoxb9 and enhance its transcriptional activa... - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Genome Workbench. Nucleotide Database. Sequence Read Archive SRA. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Genome Workbench. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Database CDD. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genes Expression. Gene Expression Omnibus GEO Database. Genome Workbench. All Genes Expression Resources... Genetics Medicine. PubMed. All Genetics Medicine Resources... Genomes Maps. Genome Workbench. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Ge...
http://ncbi.nlm.nih.gov/pubmed/10617598
*  Protein Links for PubMed (Select 12167863) - Protein - NCBI
Protein Links for PubMed Select 12167863 - Protein - NCBI. NCBI. BLAST Basic Local Alignment Search Tool. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List Identical Protein Report Identical Protein Report XML. RecName: Full=DNA dC- dU-editing enzyme APOBEC-3G; AltName: Full=APOBEC-related cytidine deaminase; Short=APOBEC-related protein; Short=ARCD; AltName: Full=APOBEC-related protein 9;...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein&from_uid=12167863
*  Block-wise alignment of nucleotide sequences?
Block-wise alignment of nucleotide sequences. Block-wise alignment of nucleotide sequences. Kevin Karplus karplus at cheep.cse.ucsc.edu. Previous message: Block-wise alignment of nucleotide sequences. Next message: MARIE CURIE EARLY STAGE RESEARCH TRAINING FELLOWSHIPS at IRIDIA, FREE UNIVERSITY OF BRUSSELS ULB. Messages sorted by:. In article bet550png23o07kepvr7hoarkn4el9oi38 at 4ax.com, Peter Frank wrote: Andreas Wilm wrote: What exactly do you mean by block-wise alignment. Maybe Dialign is what you are looking for : http://bibiserv.techfak.uni-bielefeld.de/dialign/ And this program obviously does local alignments from the website Here, DIALIGN was found to be the best method for local multiple alignment. The local/global distinction is orthogonal to the choice about whether to use blocks or affine gaps. Instead of charging for gap opening and for gap extension, the block aligners usually put a bound on the number of contiguous blocks of aligned columns that are allowed that is on the number of gaps allowed...
http://bio.net/bionet/mm/comp-bio/2004-March/002734.html
*  TDP-43 regulates its mRNA levels through a negative feedback loop. - PubMed - NCBI
... Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. DNA RNA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Primer-BLAST. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Primer-BLAST. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Genes Expression Resources... Genetics Medicine. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ...
http://ncbi.nlm.nih.gov/pubmed/21131904
*  Nucleotide (RefSeq) Links for PubMed (Select 15205473) - Nucleotide - NCBI
Nucleotide RefSeq Links for PubMed Select 15205473 - Nucleotide - NCBI. NCBI. BLAST Basic Local Alignment Search Tool. GenBank. BLAST Basic Local Alignment Search Tool. Format Summary GenBank GenBank full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List. Sort by Default order Accession Date Modified Date Released Organism Name Taxonomy ID. PREDICTED: Homo sapiens phosphatase and tensin homolog PTEN, transcript variant X3, mRNA. PREDICTED: Homo sapiens phosphatase and tensin homolog PTEN, transcript variant X2, mRNA. PREDICTED: Homo sapiens phosphatase and tensin homolog PTEN, transcript variant X1, mRNA. PREDICTED: Homo sapiens estrogen receptor 1 ESR1, transcript variant X9, mRNA. PREDICTED: Homo sapiens estrogen receptor 1 ESR1, transcript variant X8, mRNA. PREDICTED: Homo sapiens estrogen receptor 1 ESR1, transcript variant X7, mRNA. PREDICTED: Homo sapiens estrogen receptor 1 ESR1, transcript variant X6, mRNA. PREDICTED: Homo sapiens estrogen receptor 1 ESR1, transcript variant...
http://ncbi.nlm.nih.gov/nuccore?LinkName=pubmed_nuccore_refseq&from_uid=15205473
*  Alignment – Computerized Four Wheel Alignment Steering & Suspension
Alignment Computerized Four Wheel Alignment Steering Suspension. Alignment. Alignment Have you noticed uneven tire wear. Any of these symptoms may indicate the need for service or repairs to your vehicle s steering and suspension system. An alignment consists of properly adjusting the angles of the wheels according to vehicles specifications. Having a properly-aligned vehicle can protect you from spending hundreds of dollars in tire replacement and suspension repairs. 1 All-Wheel Full Adjustable Alignment: For vehicles with adjustable rear suspensions, we adjust the front and rear wheels perfectly parallel to the vehicle s geometric centerline. The results are four wheels parallel with the steering wheel perfectly centered. 2. All Wheel Thrust Angle Alignment: For vehicles with non-adjustable rear suspension, we determine the rear wheels thrust line the direction in which they push and then adjust the front wheels to be perfectly parallel with the rear thrust line. The results are front wheels precisely align...
http://eliteautoexperts.com/steering-and-suspension-repair-alignment/
*  Sequence and genetic analysis of NHP2: a moderately abundant high mobility group-like nuclear protei
... n with an essential function in Saccharomyces c... - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. PubChem Structure Search. DNA RNA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. GenBank. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. All Data Software Resources... Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genetics Medicine. PubMed. All Genetics Medicine Resources... Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 ...
http://ncbi.nlm.nih.gov/pubmed/2063628
*  Alignment Lifts: John Bean Automotive Wheel Service Equipment
Alignment Lifts: John Bean Automotive Wheel Service Equipment. . Navigation Home. About. Products. Wheel Aligners. Audit Systems. Wheel Balancers. Tire Changers. Alignment Lifts. Automotive Lifts. Brake Lathes. Approvals. International. Press Releases. Testimonials. North America Service. My Account. Documentation. Contact. Search. Find a Local Sales Rep. More Sites John Bean Canada. Snap-on Incorporated. Snap-on.com. Contact Us John Bean 309 Exchange Ave. Conway, AR 72032. Customer Care Phone: 501-450-1500 Fax: 501-450-2085 E-Mail Us Equipment Repair Service Phone: 800-225-5786 Fax: 501-505-2755 E-Mail Us. Find Us On:. Alignment Lifts. Scissor Alignment Lifts Surface-Mount: 4814605AF, 4810605AF Flush-Mount: 4814605AFFM, 4810605AFM John Bean Scissor Alignment Lifts are easy to operate, provide increased accessibility to alignment adjustment areas and are easy to load. Space saving design allows for up to five scissor lifts to fit ...
http://johnbean.com/all.asp
*  Dual promoter usage as regulatory mechanism of let-7c expression in leukemic and solid tumors. - Pu
- PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. All Genes Expression Resources... Genetics Medicine. PubMed. All Genetics Medicine Resources... Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook...
http://ncbi.nlm.nih.gov/pubmed/24637061
*  alignment programs
... jeffrey keen t j keen at leeds ac uk thu jun est previous message source lasers next message alignment programs messages sorted by http www mbio ncsu edu bioedit bioedit html or http www mrc lmb cam ac uk pubseq staden home html in article ha lm jn at mercury hgmp mrc ac uk davies andrew andrew davies at ic ac uk wrote now that abi have stopped making sequence navigator does anyone know of an easy to use and cheap free alignment program andy why does the moon come up or are the stars only pinholes in the curtain of night previous message source lasers next message alignment programs messages sorted by more information about the autoseq mailing list...
http://bio.net/bionet/mm/autoseq/2001-June/002218.html
*  Deconstructing the age-prevalence curve of alcohol dependence: why "maturing out" is only a small pi
- PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Nucleotide Database. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Genomes Maps. Nucleotide Database. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll To...
http://ncbi.nlm.nih.gov/pubmed/22060948
*  Acute bacterial inflammation of the mouse prostate. - PubMed - NCBI
Acute bacterial inflammation of the mouse prostate. - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Vector Alignment Search Tool VAST. All Data Software Resources... Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. PubMed. PubMed Central PMC. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 21681776 Format Su...
http://ncbi.nlm.nih.gov/pubmed/21681776
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?patnum=US_2008/0071748_A1
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?patnum=US_5786385
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?q=
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?query=(US2003157684 in publication_number)
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?query=(US20060008473%20in%20publication_number)&stemming=true&language=en&collections=US_A,US_B,WO_A,EP_B,AU_A,AU_B&pageLength=10
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?query=(US6054574 in publication_number)
*  All Documents - The Lens
... Patseq. PatSeq Analyzer. PatSeq Text Search. English. Search History. Collections. Register / Sign in. 93649527 51087718 families results for All Documents. Clear All Refine Search Dates Documents. Clear Refine. Jurisdictions Documents Which. China 11052681. Germany 7351566. European Patent Office 5321756. More Clear Refine. Search for an Inventor. More Clear Refine. General Electric Company 50070. Search for an Owner. More Clear Refine. Search for an Applicant. More Clear Refine. Cited Authors Wang Y 19322. Zhang Y 17071. Zhang J 16408. Wang J 15239. Wang X 13171. Zhang X 12519. Search for an Author. More Clear Refine. Cited Articles PubMed. 5575 Altschul SF et al. 1990 "Basic local alignment search tool." J. 1990 "Deciphering the message in protein sequences: tolerance to amino acid substitutions." Science 247 :1306-10. 1970 "A general method applicable to the search for similarities in the amino acid sequence of two proteins." J. 1997 "Gapped BLAST and PSI-BLAST: a new generation of protein database s...
https://lens.org/lens/search?query=(US7229625 in publication_number)
*  NIF | Searching in Literature
NIF. Searching in Literature. SciCrunch relies heavily on JavaScript. Many functions on the site will not work if you continue with JavaScript disabled. Login. Register. NIF LinkOut Portal. About. Add a Resource. Literature. Go. X. Sign In. Log In. X Forgot Password. If you have forgotten your password you can enter your email here and get a temporary password sent to your email. Send. X. Leaving Community. Are you sure you want to leave this community. Leaving the community will revoke any permissions you have been granted in this community. No. Yes. Literature. Home Literature. JOY: protein sequence-structure representation and analysis. MOTIVATION: JOY is a program to annotate protein sequence alignments with three-dimensional 3D structural features. It was developed to display 3D structural information in a sequence alignment and to help understand the conservation of amino acids in their specific local environments. RESULTS: : The JOY representation now constitutes an essential part of the two databases ...
https://scicrunch.org/9730927/resource/nif-0000-24395
*  Pfam: Sequence alignment for CL0249
... Sequence alignment for CL0249. PF05100. O64332 BPN15/24-249 T AF G MS D V L R F H AHNIAHT P EE I EAA GG DENKL P AKS I W---- W Q G EE Y K AW P ----------- C Q V E G I E A T----T D G. TIPL LAMBD/29-230 T EV GG .E R Y F FC N........EQN E K G E ........ H9L422 SALTY/29-230 T AI GG .E R F F FC N........E P N E K G E ........ P L T---- W Q G RQ Y E P Y P ----------- I Q V QD F E M N---- G K G. PF08875. Q6LHT4 PHOPR/8-149 -----NA R I N L NA---TTADE P F LILV E IHHQSFSE P A RIVADT Q DIT H A G Y R........... PF05100. TIPL LAMBD/29-230 TSTR P T L T V S N L Y G M V T G M A EDMQS LV GG T VV RRKV Y A R FL D AV N F VN G N SY A D P E Q E V .ISR W R I E Q CSELSAVS A S F V. H9L422 SALTY/29-230 AS P R P N L V V A N L F G L V T G M A EDLQS LV G A S VV RHQV Y SK FL D AV N F SN G N P D A D P E Q E A .VAR Y N V E Q LSELDSST A T I I. PF08875. Q6LHT4 PHOPR/8-149 KL P Q A K L I I D N V G RV L T ------ D E I D G TR G F E... PF05100. G QD C NYT G TA MF D AD G N P VDD P AL D R C GG R V SD C K L R ..F G AD N P LS H. TIPL LAMBD/29-230...
http://pfam.xfam.org/clan/CL0249/alignment
*  Homology modeling
... relies on the identification of one or more known protein structures likely to resemble the structure of the query sequence, and on the production of an alignment that maps residues in the query sequence to residues in the template sequence. It has been shown that protein structures are more conserved than protein sequences amongst homologues, but sequences falling below a 20% sequence identity can have very different structure. 2 The sequence alignment and template structure are then used to produce a structural model of the target. 3 The quality of the homology model is dependent on the quality of the sequence alignment and template structure. However, the errors are significantly higher in the loop regions, where the amino acid sequences of the target and template proteins may be completely different. Regions of the target sequence that are not aligned to a template are modeled by loop modeling ; they are the most susceptible to major modeling errors and occur with higher frequency when the target and...
https://en.wikipedia.org/wiki/Homology_modeling
*  Nucleotide (Weighted) Links for PubMed (Select 19103208) - Nucleotide - NCBI
Nucleotide Weighted Links for PubMed Select 19103208 - Nucleotide - NCBI. NCBI. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. GenBank. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenBank GenBank full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List. Sort by Default order Accession Date Modified Date Released Organism Name Taxonomy ID. Synthetic construct DNA, clone: pFN21AE2271, Homo sapiens CD4 gene for CD4 molecule, w...
http://ncbi.nlm.nih.gov/nuccore?LinkName=pubmed_nuccore_weighted&from_uid=19103208
*  Create a codon alignment
... Login. New account. QuickCart. Explorer. Help. Contact us Release 14.1. Resources Homepage. Gene families. Pathogens. Infectious diseases. Pfam families. Structures. Alignments. Clinical data. BLAST BLAST. PSI-BLAST. PHI-BLAST. Netblast. BLASTClust. Tools MAFFT. Alignment viewer. Jalview. RevTrans/PAL2NAL. Pattern search. Gblocks. Analyze variability. Codon usage. Documentation Tutorials. Antigenic variation. varDB construction. Terms. Links. Contact us. Homepage. Create a codon alignment Create a codon alignment based on an existing protein multiple sequence alignment using PAL2NAL or RevTrans. Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan System last updated Thu, January 24, 2013 14:25:29 JST / SVN revision: 1054 Username: 866ACF474DCCBFC3812CF0A01EF85D69....
http://vardb.org/vardb/analysis/codonalign.html
*  .. Toolbox .. Viral bioinformatics: Introduction to multiple sequence alignment .. Detecting viral
toolbox viral bioinformatics introduction to multiple sequence alignment october detecting viral proteins in infected cells or tissues by immunostaining september detection of antigens or antibodies by elisa july virology toolbox the western blot july...
http://virology.ws/tag/toolbox/
*  ? about DNA alignment
. about DNA alignment. about DNA alignment Elliot Lefkowitz lefkowitz at orion.cmc.uab.edu. Wed Jun 23 19:43:21 EST 1993. Previous message:. about DNA alignment Next message:. about DNA alignment Messages sorted by:. In article ahouse-230693133550 at 129.64.1.172 Jeremy John Ahouse, ahouse at hydra.rose.brandeis.edu writes: I have done a series of multiple alignments. The alignments were done with inferred amino acid sequences. Now that I am happy with the alignments I want to go back to the mRNA sequence which I have for some of the clustering and parsimony analysis. I want to enforce the alignments gaps, etc... from the aa's on the nucleotide alignment. I know I can do this by hand, but are there any tools that help with this, that you all know about. I have been interested in exactly such a tool for some time now. Unfortunately, I know of no program which will directly align and gap a nucleotide sequence to a previously aligned protein sequence. Doing this by hand especially with many sequences is certainl...
http://bio.net/bionet/mm/bio-soft/1993-June/004977.html
*  A brain-derived MeCP2 complex supports a role for MeCP2 in RNA processing. - PubMed - NCBI
... Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. DNA RNA. BLAST Basic Local Alignment Search Tool. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Search Service CD Search. Vector Alignment Search Tool VAST. Genetics Medicine. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 21070191 Format Summary Summary text Abstract Abstract text MEDLINE XML PMID List. We show that M...
http://ncbi.nlm.nih.gov/pubmed/21070191
*  Rfam
5 Rfam is designed to be similar to the Pfam database for annotating protein families. Unlike proteins, ncRNAs often have similar secondary structure without sharing much similarity in the primary sequence. Producing multiple sequence alignment s MSA of these families can provide insight into their structure and function, similar to the case of protein families. 6 Uses Methods History Problems References External links. For each ncRNA family, the interface allows users to: view and download multiple sequence alignments; read annotation; and examine species distribution of family members. Rfam also provides links to Wikipedia so that entries can be created or edited by users. The interface at the Rfam website allows users to search ncRNAs by keyword, family name, or genome as well as to search by ncRNA sequence or EMBL accession number. The database information is also available for download, installation and use using the INFERNAL software package. In the database, the information of the secondary structure a...
https://en.wikipedia.org/wiki/Rfam
*  The DNA sequence and analysis of human chromosome 14. - PubMed - NCBI
... Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Reference Sequence RefSeq. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. All Data Software Resources... Conserved Domain Search Service CD Search. All Genes Expression Resources... Genetics Medicine. PubMed. All Genetics Medicine Resources... Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 12508121 Format S...
http://ncbi.nlm.nih.gov/pubmed/12508121?dopt=Abstract
*  Circular permutation in proteins
... In 1979, the first pair of circularly permuted proteins – concanavalin A and lectin – were discovered; over 2000 such proteins are now known. The two main models proposed to explain the evolution of circularly permuted proteins are 'permutation by duplication' and 'fission and fusion'. Traditional algorithm s for sequence alignment and structure alignment are not able to detect circular permutations between proteins. Fission and fusion. 7 contains 2,238 circularly permuted protein pairs with known structures, and many more are known without structures. There are two main models that are currently being used to explain the evolution of circularly permuted proteins: 'permutation by duplication' and 'fission and fusion'. The earliest model proposed for the evolution of circular permutations is the permutation by duplication mechanism. An example for permutation by duplication is the relationship between saposin and swaposin. Fission and fusion. Another model for the evolution of circular permutations is the...
https://en.wikipedia.org/wiki/Circular_permutation_in_proteins
*  Expression of catalytically inactive Syp phosphatase in 3T3 cells blocks stimulation of mitogen-acti
... vated protein kinase by insulin. - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. All Data Software Resources... Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 8063746 Format Summary Summary text Abstract Abstra...
http://ncbi.nlm.nih.gov/pubmed/8063746
*  A neuronal cell line (PC12) expresses two beta 1-class integrins-alpha 1 beta 1 and alpha 3 beta 1-t
A neuronal cell line PC12 expresses two beta 1-class integrins-alpha 1 beta 1 and alpha 3 beta 1-that recognize different neurite outgrowth-promo... - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Reference Sequence RefSeq. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. All Data Software Resources... Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. All Genetics Medicine Resources... Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health ...
http://ncbi.nlm.nih.gov/pubmed/2223092
*  Protein (Weighted) Links for PubMed (Select 18040029) - Protein - NCBI
Protein Weighted Links for PubMed Select 18040029 - Protein - NCBI. NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Reference Sequence RefSeq. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Format Summary GenPept GenPept full FASTA ASN.1 XML INSDSeq XML TinySeq XML Feature Table Accession List GI List. Sort by Default order Accession Date Modified Date Released ...
http://ncbi.nlm.nih.gov/protein?LinkName=pubmed_protein_weighted&from_uid=18040029
*  The Analysis and Annotation Tool (AAT) Package
The analysis and annotation tool AAT includes two sets of programs, one for comparing the query sequence with a protein database and the other for comparing the query with a cDNA database. Pairwise alignments of the query sequence with protein and cDNA database sequences are combined into multiple sequence alignments, which provide a view of all protein and cDNA sequences matching a query region. dds a blast-like dna/dna search and alignment tool gap2 nucleotide spliced alignment tool. dps a blast-linke protein/dna search and alignment tool nap protein to genome spliced alignment tool. dds - ext - filter - gap2. The protein spliced alignment pipeline includes:. dps - ext - filter - nap. # Flags: # # -N :nucleotide transcript spliced alignment pipeline dds/ext/filter/nap # # -P :protein spliced alignment pipeline dps/ext/filter/nap # # -b :btab files only deletes the nap alignment outputs # -X :don't delete the intermediate files of the pipeline # # Parameters: # # -q 'param' :query database fasta or multi-fas...
http://aatpackage.sourceforge.net/
*  Codes and Symbols in Sequence Alignments
... . Housekeeping Site map HCV classification How to use this site Comments Help files News emails Primer email list. Retrieving data Search interface Advanced search Geography Alignments Known Genotypes Flaviviruses HCV variability External datasets Genome sequencing. Analysis Entropy Findmodel HCVAlign HCV BLAST Highlighter N-Glycosite PCOORD PhyML SNAP TreeMaker PhyloPlace VESPA. Tools. BranchLength CodonAlign Consensus ElimDupes Format Converter Gap strip/squeeze. Gene Cutter MotifScan PepMap PeptGen Pixel Protein Feature Accent QuickAlign SeqPublish Sequence Locator SynchAligns Translate. Links. Immunology DB Database software Conferences Web resources HIV databases HFV database. To our users Please note that the HCV database site is no longer funded. We try to keep the database updated and the tools running, but unfortunately, we cannot guarantee we can provide help for using this site. Data won't be manually curated either. Codes and Symbols in Sequence Alignments This page decodes the symbols you ma...
http://hcv.lanl.gov/content/sequence/HelpDocs/IUPAC.html
*  Zea mays - Taxonomy - NCBI
... NCBI. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Search Service CD Search. PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. Nucleotide Nucleotide sequences associated with taxonomy record exploded for higher taxa. Protein Protein sequences associated with taxonomy record exploded for higher taxa. Assembly Assembly records associated with taxonomy record exploded for higher taxa. BioSystems BioSystems records ass...
http://ncbi.nlm.nih.gov/taxonomy?LinkName=nucgss_taxonomy&from_uid=327475534
*  Homeotropic alignment
... in liquid crystals homeotropic alignment is one of the ways of alignment of liquid crystalline molecules homeotropic alignment is the state in which a rod like liquid crystalline molecule aligns perpendicularly to the substrate in the polydomain state the parts also are called homeotropic domains in contrast the state in which the molecule aligns to a substance in parallel is called homogeneous alignment there are various other ways of alignment in liquid crystals because homeotropic alignment is not anisotropy optically a dark field is observed between crossed polarizers in polarizing optical microscopy by conoscope observation however a cross image is observed in the homeotropic alignments homeotropic alignment often appears in the smectic a phase s a in discotic liquid crystals homeotropic alignment is defined as the state in which an axis of the column structure which is formed by disc like liquid crystalline molecules aligns perpendicularly to a substance in other words this alignment looks like a s...
https://en.wikipedia.org/wiki/Homeotropic_alignment
*  PubReader™
Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Genomes Maps. Search database PMC All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene. We are sorry, but NCBI web applications do not support your browser and may not function properly. PubRea...
http://ncbi.nlm.nih.gov/pmc/about/pubreader/?refpmcid=1466657
*  PubReader™
Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Genomes Maps. Search database PMC All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene. We are sorry, but NCBI web applications do not support your browser and may not function properly. PubRea...
http://ncbi.nlm.nih.gov/pmc/about/pubreader/?refpmcid=1551904
*  PubReader™
Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Genomes Maps. Search database PMC All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene. We are sorry, but NCBI web applications do not support your browser and may not function properly. PubRea...
http://ncbi.nlm.nih.gov/pmc/about/pubreader/?refpmcid=22151
*  PubReader™
NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Sequence Read Archive SRA. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Database CDD. Conserved Domain Search Service CD Search. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Genomes Maps. Search database PMC All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene. PubReader™ The PubReader view is an alternative web presentation that offers another, more reader-friendly way to read literature in PMC and Bookshelf. Try out the P...
http://ncbi.nlm.nih.gov/pmc/about/pubreader/?refpmcid=3381332
*  An early step in wobble uridine tRNA modification requires the Elongator complex. - PubMed - NCBI
- PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. All Genes Expression Resources... PubMed. PubMed Central PMC. All Genetics Medicine Resources... Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 15769872 Format Summary Summary text Abstract Abstract text MEDLINE XML PMID List. In Saccharomyces cerevisiae, mutations in any of the six Elongator protein subunit ELP1-ELP6 gene...
http://ncbi.nlm.nih.gov/pubmed/15769872
*  High throughput solution-based measurement of antibody-antigen affinity and epitope binning. - PubM
... ed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. BLAST Basic Local Alignment Search Tool. BLAST Basic Local Alignment Search Tool. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. PubMed. PubMed Central PMC. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 23575269 Format Summary Summary text Abstract Abstract text MEDLINE XML PMID List. High throughput solution-based measurement of antibody-antigen affinity and epitope binning. BLI; KD; MSD; affinity; antibody; epitope; high throughput; kinetic exclusion. High thr...
http://ncbi.nlm.nih.gov/pubmed/23575269
*  Specific insulin-like peptides encode sensory information to regulate distinct developmental process
... es. - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. BLAST Basic Local Alignment Search Tool. BLAST Basic Local Alignment Search Tool. Genetics Medicine. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 21343369 Format Summary Summary text Abstract Abstract text MEDLINE XML PMID List. Specific insulin-like peptides encode sensory information to regulate distinct developmental processes. C elegans has 40 putative insulin-like genes, many of which are expressed in sensory neurons and i...
http://ncbi.nlm.nih.gov/pubmed/21343369
*  superoxide metabolic process - BioSystems - NCBI
... NCBI. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. All Domains Structures Resources... PubMed. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. The association between the proteins and biosystems was made using the method described in the data processing section of the BioSystems help document. Protein Clusters Protein Clusters database records that are linked to the proteins involved in the biosystem. The association between the proteins a...
http://ncbi.nlm.nih.gov/biosystems?LinkName=pubmed_biosystems&from_uid=4196244
*  LRRN3
'Leucine-rich repeat neuronal protein 3', also known as 'neuronal leucine-rich repeat protein 3' NLRR-3, is a protein that in humans is encoded by the 'LRRN3' gene. Gene Protein Gene Conservation Gene Expression Structure References Further reading. These include the LRRN1 and LRRN2 genes, both of which have the same leucine-rich repeats that are characteristic to this family of genes. The LRRN3 protein contains 12 leucine-rich repeats, along with an LRRNT and an LRR RI domain. All major classes of LRRs are known to have a curved horseshoe structure with a parallel beta sheet on the concave side and mostly helical elements on the convex side. thumb|upright=0.25|alt=The LRRN3 Multiple Sequence Alignment|The multiple sequence alignment shows the highly conserved regions of the LRRN3 protein. A multiple sequence alignment has shown this very high conservation of the LRRN3 gene among many different species. All 12 of the leucine-rich repeats, along with the LRRNT and the LRR RI regions, are highly conserved in al...
https://en.wikipedia.org/wiki/LRRN3
*  RNA degradation - BioSystems - NCBI
... NCBI. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. All Genes Expression Resources... PubMed. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term Search. The association between the proteins and biosystems was made using the method described in the data processing section of the BioSystems help document. Protein Clusters Protein Clusters database records that are linked to the proteins involved in the biosystem. The association between the proteins and biosystems wa...
http://ncbi.nlm.nih.gov/biosystems/116127
*  PatternHunter
'PatternHunter' is a commercially available homology search instrument software that uses sequence alignment techniques. These scientists realized that such studies greatly relied on homology studies that established short seed matches that were subsequently lengthened. Homologous genes could only be studied effectively using search tools that established like portions or local placement between two proteins or nucleic acid sequences. Homology was quantified by scores obtained from matching sequences, “mismatch and gap scores”. Development Approach Speed Sensitivity Specifications Future advances References. Several sequence alignment programs have been developed to determine homology between genes. They mostly use Smith-Waterman alignment technique, which compares bases against other bases, but is too slow. However, when dealing with lengthy sequences, the above-mentioned techniques are extremely sluggish and required considerable memory sizes. Techniques such as MUMmer and QUASAR employ suffix trees, which ...
https://en.wikipedia.org/wiki/PatternHunter
*  Surface molecular tailoring using pH-switchable supramolecular dendron-ligand assemblies. - PubMed
... - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. Conserved Domain Search Service CD Search. PubMed. PubMed Central PMC. Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 24742280 Format Summary Summary text Abstract Abstract text MEDLINE XML PMID List. Surface molecular tailoring using pH-switchable supramolecular dendron-ligand assemblies. Surface Molecular Tailoring Using pH-Switchable Supramolecular Den...
http://ncbi.nlm.nih.gov/pubmed/24742280
*  Altered expression of G1/S regulatory genes occurs early and frequently in lung carcinogenesis in tr
... ansforming growth factor-beta1 heterozygous mice. - PubMed - NCBI Warning: The NCBI web site requires JavaScript to function. NCBI. Resources. All Resources. PubChem Structure Search. BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. All DNA RNA Resources... BLAST Basic Local Alignment Search Tool. BLAST Stand-alone. Conserved Domain Search Service CD Search. PubChem Structure Search. Conserved Domain Search Service CD Search. All Genes Expression Resources... Genetics Medicine. PubMed. All Genetics Medicine Resources... Genomes Maps. Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 12117781 F...
http://ncbi.nlm.nih.gov/pubmed/12117781
*  Mouse models of human AML accurately predict chemotherapy response. - PubMed - NCBI
... Warning: The NCBI web site requires JavaScript to function. NCBI. BLAST Basic Local Alignment Search Tool. BLAST Basic Local Alignment Search Tool. All Genes Expression Resources... Genetics Medicine. PubMed. PubMed Central PMC. All Genetics Medicine Resources... Search database All Databases Assembly BioProject BioSample BioSystems Books ClinVar Clone Conserved Domains dbGaP dbVar Epigenomics EST Gene Genome GEO DataSets GEO Profiles GSS GTR HomoloGene MedGen MeSH NCBI Web Site NLM Catalog Nucleotide OMIM PMC PopSet Probe Protein Protein Clusters PubChem BioAssay PubChem Compound PubChem Substance PubMed PubMed Health SNP SRA Structure Taxonomy ToolKit ToolKitAll ToolKitBook UniGene Search term. 1 selected item: 19339691 Format Summary Summary text Abstract Abstract text MEDLINE XML PMID List. To model such heterogeneity, we produced genetically and pathologically accurate mouse models of common forms of human acute myeloid leukemia AML and developed methods to mimic standard induction chemotherapy and ...
http://ncbi.nlm.nih.gov/pubmed/19339691

CS-BLASTProtein subcellular localization prediction: Protein subcellular localization prediction (or just protein localization prediction) involves the computational prediction of where a protein resides in a cell.Mac OS X Server 1.0Clonal Selection Algorithm: In artificial immune systems, Clonal selection algorithms are a class of algorithms inspired by the clonal selection theory of acquired immunity that explains how B and T lymphocytes improve their response to antigens over time called affinity maturation. These algorithms focus on the Darwinian attributes of the theory where selection is inspired by the affinity of antigen-antibody interactions, reproduction is inspired by cell division, and variation is inspired by somatic hypermutation.Coles PhillipsProtein primary structure: The primary structure of a peptide or protein is the linear sequence of its amino acid structural units, and partly comprises its overall biomolecular structure. By convention, the primary structure of a protein is reported starting from the amino-terminal (N) end to the carboxyl-terminal (C) end.PSI Protein Classifier: PSI Protein Classifier is a program generalizing the results of both successive and independent iterations of the PSI-BLAST program. PSI Protein Classifier determines belonging of the found by PSI-BLAST proteins to the known families.Branching order of bacterial phyla (Gupta, 2001): There are several models of the Branching order of bacterial phyla, one of these was proposed in 2001 by Gupta based on conserved indels or protein, termed "protein signatures", an alternative approach to molecular phylogeny. Some problematic exceptions and conflicts are present to these conserved indels, however, they are in agreement with several groupings of classes and phyla.Lattice protein: Lattice proteins are highly simplified computer models of proteins which are used to investigate protein folding.Human Proteinpedia: Human Proteinpedia is a portal for sharing and integration of human proteomic data,.Kandasamy et al.DNA sequencer: A DNA sequencer is a scientific instrument used to automate the DNA sequencing process. Given a sample of DNA, a DNA sequencer is used to determine the order of the four bases: G (guanine), C (cytosine), A (adenine) and T (thymine).Reaction coordinateInternet organizations: This is a list of Internet organizations, or organizations that play or played a key role in the evolution of the Internet by developing recommendations, standards, and technology; deploying infrastructure and services; and addressing other major issues.Symmetry element: A symmetry element is a point of reference about which symmetry operations can take place. In particular, symmetry elements can be centers of inversion, axes of rotation and mirror planes.Molecular evolution: Molecular evolution is a change in the sequence composition of cellular molecules such as DNA, RNA, and proteins across generations. The field of molecular evolution uses principles of evolutionary biology and population genetics to explain patterns in these changes.Immersive technologyJigsaw (power tool): A jigsaw power tool is a jigsaw made up of an electric motor and a reciprocating saw blade.MIPModDB: MIPModDB is a database of comparative protein structure models of MIP (Major intrinsic proteins) family of proteins.FERM domain: In molecular biology, the FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane.Andy HardyList of molecular graphics systems: This is a list of software systems that are used for visualizing macromolecules.Transmembrane domain: Transmembrane segment usually denotes a single transmembrane alpha helix of a transmembrane protein, also known as an integral protein.http://www.Vladimir Andreevich Markov: Vladimir Andreevich Markov (; May 8, 1871 – January 18, 1897) was a Russian mathematician, known for proving the Markov brothers' inequality with his older brother Andrey Markov. He died of tuberculosis at the age of 25.Database of protein conformational diversity: The Database of protein conformational diversity (PCDB) is a database of diversity of protein tertiary structures within protein domains as determined by X-ray crystallography. Proteins are inherently flexible and this database collects information on this subject for use in molecular research.Ontario Genomics Institute: The Ontario Genomics Institute (OGI) is a not-for-profit organization that manages cutting-edge genomics research projects and platforms.The Ontario Genomics Institute OGI also helps scientists find paths to the marketplace for their discoveries and the products to which they lead, and it works through diverse outreach and educational activities to raise awareness and facilitate informed public dialogue about genomics and its social impacts.Interval boundary element method: Interval boundary element method is classical boundary element method with the interval parameters.
Extracellular: In cell biology, molecular biology and related fields, the word extracellular (or sometimes extracellular space) means "outside the cell". This space is usually taken to be outside the plasma membranes, and occupied by fluid.List of sequenced eukaryotic genomesDNA binding site: DNA binding sites are a type of binding site found in DNA where other molecules may bind. DNA binding sites are distinct from other binding sites in that (1) they are part of a DNA sequence (e.Word Juggler: Word Juggler was a word processor application by Quark, Inc. for the Apple IIe, IIc, and III computers.Inverse probability weighting: Inverse probability weighting is a statistical technique for calculating statistics standardized to a population different from that in which the data was collected. Study designs with a disparate sampling population and population of target inference (target population) are common in application.Conference and Labs of the Evaluation Forum: The Conference and Labs of the Evaluation Forum (formerly Cross-Language Evaluation Forum), or CLEF, is an organization promoting research in multilingual information access (currently focusing on European languages). Its specific functions are to maintain an underlying framework for testing information retrieval systems and to create repositories of data for researchers to use in developing comparable standards.Ligation-independent cloning: Ligation-independent cloning (LIC) is a form of molecular cloning that is able to be performed without the use of restriction endonucleases or DNA ligase. This allows genes that have restriction sites to be cloned without worry of chopping up the insert.Short linear motifDecoding methods: In coding theory, decoding is the process of translating received messages into codewords of a given code. There have been many common methods of mapping messages to codewords.Generalizability theory: Generalizability theory, or G Theory, is a statistical framework for conceptualizing, investigating, and designing reliable observations. It is used to determine the reliability (i.List of software development philosophies: This is a list of approaches, styles, and philosophies in software development not included in the category tree of software development philosophies. It contains also software development processes, software development methodologies and single practices, principles and laws.RDF query language: An RDF query language is a computer language, specifically a query language for databases, able to retrieve and manipulate data stored in Resource Description Framework format.YjdF RNA motifList of strains of Escherichia coli: Escherichia coli is a well studied bacterium that was first identified by Theodor Escherich, after whom it was later named.Knotted protein: Knotted proteins are proteins whose backbones entangle themselves in a knot. One can imagine pulling a protein chain from both termini, as though pulling a string from both ends.SciDBFerric uptake regulator family: In molecular biology, the ferric uptake regulator (FUR) family of proteins includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria.Nucleic acid structure: Nucleic acid structure refers to the structure of nucleic acids such as DNA and RNA. Chemically speaking, DNA and RNA are very similar.ParaHox: The ParaHox gene cluster is an array of homeobox genes (involved in morphogenesis, the regulation of patterns of anatomical development) from the Gsx, Xlox (Pdx) and Cdx gene families.Silent mutation: Silent mutations are mutations in DNA that do not significantly alter the phenotype of the organism in which they occur. Silent mutations can occur in non-coding regions (outside of genes or within introns), or they may occur within exons.Mexican International Conference on Artificial Intelligence: MICAI (short for Mexican International Conference on Artificial Intelligence) is the name of an annual conference covering all areas of Artificial Intelligence (AI), held in Mexico. The first MICAI conference was held in 2000.DNA condensation: DNA condensation refers to the process of compacting DNA molecules in vitro or in vivo. Mechanistic details of DNA packing are essential for its functioning in the process of gene regulation in living systems.Proximity ligation assay: Proximity ligation assay (in situ PLA) is a technology that extends the capabilities of traditional immunoassays to include direct detection of proteins, protein interactions and modifications with high specificity and sensitivity. Protein targets can be readily detected and localized with single molecule resolution and objectively quantified in unmodified cells and tissues.Ethyl groupSpecificity constant: In the field of biochemistry, the specificity constant (also called kinetic efficiency or k_{cat}/K_{M}), is a measure of how efficiently an enzyme converts substrates into products. A comparison of specificity constants can also be used as a measure of the preference of an enzyme for different substrates (i.Phase problem: In physics the phase problem is the name given to the problem of loss of information concerning the phase that can occur when making a physical measurement. The name itself comes from the field of x-ray crystallography, where the phase problem has to be solved for the determination of a structure from diffraction data.Assay sensitivity: Assay sensitivity is a property of a clinical trial defined as the ability of a trial to distinguish an effective treatment from a less effective or ineffective intervention. Without assay sensitivity, a trial is not internally valid and is not capable of comparing the efficacy of two interventions.Genetic variation: right|thumbSequence clustering: In bioinformatics, sequence clustering algorithms attempt to group biological sequences that are somehow related. The sequences can be either of genomic, "transcriptomic" (ESTs) or protein origin.Hyperparameter: In Bayesian statistics, a hyperparameter is a parameter of a prior distribution; the term is used to distinguish them from parameters of the model for the underlying system under analysis.Acid catalysis: In acid catalysis and base catalysis a chemical reaction is catalyzed by an acid or a base. The acid is the proton donor and the base is the proton acceptor.Negative probability: The probability of the outcome of an experiment is never negative, but quasiprobability distributions can be defined that allow a negative probability for some events. These distributions may apply to unobservable events or conditional probabilities.Dark matter halo: A dark matter halo is a hypothetical component of a galaxy that envelops the galactic disc and extends well beyond the edge of the visible galaxy. The halo's mass dominates the total mass.Open reading frame: In molecular genetics, an open reading frame (ORF) is the part of a reading frame that has the potential to code for a protein or peptide. An ORF is a continuous stretch of codons that do not contain a stop codon (usually UAA, UAG or UGA).Conditional quantum entropy: The conditional quantum entropy is an entropy measure used in quantum information theory. It is a generalization of the conditional entropy of classical information theory.Domain (biology): In biological taxonomy, a domain (also superregnum, superkingdom, empire, or regio) is the highest taxonomic rank of organisms in the three-domain system of taxonomy designed by Carl Woese, an American microbiologist and biophysicist. According to the Woese system, introduced in 1990, the tree of life consists of three domains: Archaea (a term which Woese created), Bacteria, and Eukaryota.Besnoitiosis: Besnoitiosis is "a protozoan disease of the skin, subcutis, blood vessels, mucous membranes, and other tissues" of animals.The Merck Veterinary Manual, "Besnoitiosis: Introduction" It "is endemic in tropical and sub-tropical regions with high infection rate but low mortality," however it is rare in other regions.Base pair: Base pairs (unit: bp), which form between specific nucleobases (also termed nitrogenous bases), are the building blocks of the DNA double helix and contribute to the folded structure of both DNA and RNA. Dictated by specific hydrogen bonding patterns, Watson-Crick base pairs (guanine-cytosine and adenine-thymine) allow the DNA helix to maintain a regular helical structure that is subtly dependent on its nucleotide sequence.Calculator: An electronic calculator is a small, portable electronic device used to perform both basic operations of arithmetic and complex mathematical operations.Lempel–Ziv–Oberhumer: Lempel–Ziv–Oberhumer (LZO) is a lossless data compression algorithm that is focused on decompression speed.Analytical quality control: Analytical quality control, commonly shortened to AQC refers to all those processes and procedures designed to ensure that the results of laboratory analysis are consistent, comparable, accurate and within specified limits of precision.analytical quality control (AQC) program to ensure the highest level of confidence in reported data Constituents submitted to the analytical laboratory must be accurately described to avoid faulty interpretations, approximations, or incorrect results.Chromosome regionsMonte Carlo methods for option pricing: In mathematical finance, a Monte Carlo option model uses Monte Carlo methods Although the term 'Monte Carlo method' was coined by Stanislaw Ulam in the 1940s, some trace such methods to the 18th century French naturalist Buffon, and a question he asked about the results of dropping a needle randomly on a striped floor or table. See Buffon's needle.Global microbial identifier: The genomic epidemiological database for global identification of microorganisms or global microbial identifier (GMI) is a platform for storing whole genome sequencing (WGS) data of microorganisms, for the identification of relevant genes and for the comparison of genomes to detect and track-and-trace infectious disease outbreaks and emerging pathogens. The database holds two types of information: 1) genomic information of microorganisms, linked to, 2) metadata of those microorganism such as epidemiological details.Acknowledgement (data networks): In data networking, an acknowledgement (or acknowledgment) is a signal passed between communicating processes or computers to signify acknowledgement, or receipt of response, as part of a communications protocol. For instance, ACK packets are used in the Transmission Control Protocol (TCP) to acknowledge the receipt of SYN packets when establishing a connection, data packets while a connection is being used, and FIN packets when terminating a connection.The Chimps of Fauna Sanctuary: The Chimps of Fauna Sanctuary: A Canadian Story of Resilience and Recovery is a non-fiction book, written by Canadian writer Andrew Westoll, first published in May 2011 by Harper Collins. In the book, the author chronicles the time he spent volunteering at the Fauna Sanctuary, an animal refuge in Quebec for chimpanzees that had been used for biomedical research.Tetraodontidae: Tetraodontidae is a family of primarily marine and estuarine fish of the order Tetraodontiformes. The family includes many familiar species, which are variously called pufferfish, puffers, balloonfish, blowfish, bubblefish, globefish, swellfish, toadfish, toadies, honey toads, sugar toads, and sea squab.

(1/38700) Intracellular signalling: PDK1--a kinase at the hub of things.

Phosphoinositide-dependent kinase 1 (PDK1) is at the hub of many signalling pathways, activating PKB and PKC isoenzymes, as well as p70 S6 kinase and perhaps PKA. PDK1 action is determined by colocalization with substrate and by target site availability, features that may enable it to operate in both resting and stimulated cells.  (+info)

(2/38700) Molecular phylogeny of the ETS gene family.

We have constructed a molecular phylogeny of the ETS gene family. By distance and parsimony analysis of the ETS conserved domains we show that the family containing so far 29 different genes in vertebrates can be divided into 13 groups of genes namely ETS, ER71, GABP, PEA3, ERG, ERF, ELK, DETS4, ELF, ESE, TEL, YAN, SPI. Since the three dimensional structure of the ETS domain has revealed a similarity with the winged-helix-turn-helix proteins, we used two of them (CAP and HSF) to root the tree. This allowed us to show that the family can be divided into five subfamilies: ETS, DETS4, ELF, TEL and SPI. The ETS subfamily comprises the ETS, ER71, GABP, PEA3, ERG, ERF and the ELK groups which appear more related to each other than to any other ETS family members. The fact that some members of these subfamilies were identified in early metazoans such as diploblasts and sponges suggests that the diversification of ETS family genes predates the diversification of metazoans. By the combined analysis of both the ETS and the PNT domains, which are conserved in some members of the family, we showed that the GABP group, and not the ERG group, is the one most closely related to the ETS group. We also observed that the speed of accumulation of mutations in the various genes of the family is highly variable. Noticeably, paralogous members of the ELK group exhibit strikingly different evolutionary speed suggesting that the evolutionary pressure they support is very different.  (+info)

(3/38700) Crystal structure of MHC class II-associated p41 Ii fragment bound to cathepsin L reveals the structural basis for differentiation between cathepsins L and S.

The lysosomal cysteine proteases cathepsins S and L play crucial roles in the degradation of the invariant chain during maturation of MHC class II molecules and antigen processing. The p41 form of the invariant chain includes a fragment which specifically inhibits cathepsin L but not S. The crystal structure of the p41 fragment, a homologue of the thyroglobulin type-1 domains, has been determined at 2.0 A resolution in complex with cathepsin L. The structure of the p41 fragment demonstrates a novel fold, consisting of two subdomains, each stabilized by disulfide bridges. The first subdomain is an alpha-helix-beta-strand arrangement, whereas the second subdomain has a predominantly beta-strand arrangement. The wedge shape and three-loop arrangement of the p41 fragment bound to the active site cleft of cathepsin L are reminiscent of the inhibitory edge of cystatins, thus demonstrating the first example of convergent evolution observed in cysteine protease inhibitors. However, the different fold of the p41 fragment results in additional contacts with the top of the R-domain of the enzymes, which defines the specificity-determining S2 and S1' substrate-binding sites. This enables inhibitors based on the thyroglobulin type-1 domain fold, in contrast to the rather non-selective cystatins, to exhibit specificity for their target enzymes.  (+info)

(4/38700) A single membrane-embedded negative charge is critical for recognizing positively charged drugs by the Escherichia coli multidrug resistance protein MdfA.

The nature of the broad substrate specificity phenomenon, as manifested by multidrug resistance proteins, is not yet understood. In the Escherichia coli multidrug transporter, MdfA, the hydrophobicity profile and PhoA fusion analysis have so far identified only one membrane-embedded charged amino acid residue (E26). In order to determine whether this negatively charged residue may play a role in multidrug recognition, we evaluated the expression and function of MdfA constructs mutated at this position. Replacing E26 with the positively charged residue lysine abolished the multidrug resistance activity against positively charged drugs, but retained chloramphenicol efflux and resistance. In contrast, when the negative charge was preserved in a mutant with aspartate instead of E26, chloramphenicol recognition and transport were drastically inhibited; however, the mutant exhibited almost wild-type multidrug resistance activity against lipophilic cations. These results suggest that although the negative charge at position 26 is not essential for active transport, it dictates the multidrug resistance character of MdfA. We show that such a negative charge is also found in other drug resistance transporters, and its possible significance regarding multidrug resistance is discussed.  (+info)

(5/38700) Anopheles gambiae Ag-STAT, a new insect member of the STAT family, is activated in response to bacterial infection.

A new insect member of the STAT family of transcription factors (Ag-STAT) has been cloned from the human malaria vector Anopheles gambiae. The domain involved in DNA interaction and the SH2 domain are well conserved. Ag-STAT is most similar to Drosophila D-STAT and to vertebrate STATs 5 and 6, constituting a proposed ancient class A of the STAT family. The mRNA is expressed at all developmental stages, and the protein is present in hemocytes, pericardial cells, midgut, skeletal muscle and fat body cells. There is no evidence of transcriptional activation following bacterial challenge. However, bacterial challenge results in nuclear translocation of Ag-STAT protein in fat body cells and induction of DNA-binding activity that recognizes a STAT target site. In vitro treatment with pervanadate (vanadate and H2O2) translocates Ag-STAT to the nucleus in midgut epithelial cells. This is the first evidence of direct participation of the STAT pathway in immune responses in insects.  (+info)

(6/38700) Assembly requirements of PU.1-Pip (IRF-4) activator complexes: inhibiting function in vivo using fused dimers.

Gene expression in higher eukaryotes appears to be regulated by specific combinations of transcription factors binding to regulatory sequences. The Ets factor PU.1 and the IRF protein Pip (IRF-4) represent a pair of interacting transcription factors implicated in regulating B cell-specific gene expression. Pip is recruited to its binding site on DNA by phosphorylated PU.1. PU.1-Pip interaction is shown to be template directed and involves two distinct protein-protein interaction surfaces: (i) the ets and IRF DNA-binding domains; and (ii) the phosphorylated PEST region of PU.1 and a lysine-requiring putative alpha-helix in Pip. Thus, a coordinated set of protein-protein and protein-DNA contacts are essential for PU.1-Pip ternary complex assembly. To analyze the function of these factors in vivo, we engineered chimeric repressors containing the ets and IRF DNA-binding domains connected by a flexible POU domain linker. When stably expressed, the wild-type fused dimer strongly repressed the expression of a rearranged immunoglobulin lambda gene, thereby establishing the functional importance of PU.1-Pip complexes in B cell gene expression. Comparative analysis of the wild-type dimer with a series of mutant dimers distinguished a gene regulated by PU.1 and Pip from one regulated by PU.1 alone. This strategy should prove generally useful in analyzing the function of interacting transcription factors in vivo, and for identifying novel genes regulated by such complexes.  (+info)

(7/38700) Analysis of two cosmid clones from chromosome 4 of Drosophila melanogaster reveals two new genes amid an unusual arrangement of repeated sequences.

Chromosome 4 from Drosophila melanogaster has several unusual features that distinguish it from the other chromosomes. These include a diffuse appearance in salivary gland polytene chromosomes, an absence of recombination, and the variegated expression of P-element transgenes. As part of a larger project to understand these properties, we are assembling a physical map of this chromosome. Here we report the sequence of two cosmids representing approximately 5% of the polytenized region. Both cosmid clones contain numerous repeated DNA sequences, as identified by cross hybridization with labeled genomic DNA, BLAST searches, and dot matrix analysis, which are positioned between and within the transcribed sequences. The repetitive sequences include three copies of the mobile element Hoppel, one copy of the mobile element HB, and 18 DINE repeats. DINE is a novel, short repeated sequence dispersed throughout both cosmid sequences. One cosmid includes the previously described cubitus interruptus (ci) gene and two new genes: that a gene with a predicted amino acid sequence similar to ribosomal protein S3a which is consistent with the Minute(4)101 locus thought to be in the region, and a novel member of the protein family that includes plexin and met-hepatocyte growth factor receptor. The other cosmid contains only the two short 5'-most exons from the zinc-finger-homolog-2 (zfh-2) gene. This is the first extensive sequence analysis of noncoding DNA from chromosome 4. The distribution of the various repeats suggests its organization is similar to the beta-heterochromatic regions near the base of the major chromosome arms. Such a pattern may account for the diffuse banding of the polytene chromosome 4 and the variegation of many P-element transgenes on the chromosome.  (+info)

(8/38700) The mouse Aire gene: comparative genomic sequencing, gene organization, and expression.

Mutations in the human AIRE gene (hAIRE) result in the development of an autoimmune disease named APECED (autoimmune polyendocrinopathy candidiasis ectodermal dystrophy; OMIM 240300). Previously, we have cloned hAIRE and shown that it codes for a putative transcription-associated factor. Here we report the cloning and characterization of Aire, the murine ortholog of hAIRE. Comparative genomic sequencing revealed that the structure of the AIRE gene is highly conserved between human and mouse. The conceptual proteins share 73% homology and feature the same typical functional domains in both species. RT-PCR analysis detected three splice variant isoforms in various mouse tissues, and interestingly one isoform was conserved in human, suggesting potential biological relevance of this product. In situ hybridization on mouse and human histological sections showed that AIRE expression pattern was mainly restricted to a few cells in the thymus, calling for a tissue-specific function of the gene product.  (+info)


How long are jaw alignment braces needed for?


I recently got told to wear removable jaw alignment braces, which are the ones with big blocks on them. They cause my jaw and face to really ache, and look hideous as they're very big and bulky. Does anyone know how long I will have these for before getting fitted braces?
I'm 17 in 2 weeks, and all I want is to hurry up and get fixed braces, but my orthodontist never tells me anything.
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it all depends on how badly crooked your teeth are. you may have them for weeks, months or longer. it just all depends on how your teeth were before.
and your orthodontist probably doesn't tell you anything because they never know anything for sure. something could always change and you wouldn't wanna be let down, would you? mine did the same thing. lol.


What is the best sequence for the following?


* Dinner
* Jogging
* Gym
* Swimming
* Steam Bath

I want to do all these activities in just one night -- Every night if possible.
My available time is from 7 pm onwards, do you think it's possible?

If you can arrange the sequence with precise explanation that would be great! :)

thanks everyone in advance!
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Gina is 100% correct!


What is the most important bone for posture and alignment?


I'm taking a yoga course and it is asking what the most important bone in the upper body is most important for posture and alignment directing particular attention to tadasana (mountain pose).  I can't find it anywhere. HELP!
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How will i sequence these exercises in my strength building routine?


Currently i do exercises such as push ups, dips, sit ups, bicep curls and sometimes chin ups. I can do 3 sets of 20 push ups, 2 sets of 15 dips, 3 sets of 8 bicep curls, 1 set of 35 sit ups and barely 2 reps of chin ups. can anyone tell me how will i sequence these exercises as in what after what and how long break will i take between them? a proper comprehensive answer is what i want for the best answer.
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If these are the only exercises that you are doing, then i suggest you aim for more repetitions for your push ups and sit ups. That said, it seems like you're at the beginning stage of your strength training program, so what you are doing is alright, but not fantastic. 

The sequence that you should do the exercises that you are currently doing should all affect the same muscle groups (i.e. chest + triceps, back + biceps, and abs can be done separately after your main workouts). 

Chest + Triceps: 3 sets up push ups at a 1 minute rest interval. When you're done your push ups do your 2 sets of dips, also at a 1 minute rest interval. 

The same idea for your back + biceps: Chin ups and bicep curls. 

Chin ups/Pull ups are fantastic workouts, and they are perfect for training upper body strength, so do not skip out on doing them. If you're doing 2 normal reps now, I suggest you keep working on your chin ups/pull ups. In order to increase the amount of chin ups you can do, try doing negatives. 

Here's how to do a negative chin up: http://www.youtube.com/watch?v=Opr72q6NKTc


Which exercises to do to fix the abnormal alignment in my kneecap?


I would be going out of town, so I don't have time for physical therapy as of yet. Can you guys recommended some good exercises that will fix the slightly abnormal alignment in my kneecap. Some references on the internet would also help.
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Here is a good place to start.
http://www.peacehealth.org/kbase/topic/major/tn7304/descrip.htm
http://www.cigna.com/healthinfo/tn7304.html
http://www.questdiagnostics.com/kbase/topic/major/tn7304/course.htm

Just be sure your diagnosis is right before starting.pp


How do I keep my back and neck in alignment?


They frequently go out of alignment.  How do I keep this from happening?
I currently see a chiropractor on a regular basis.  I would like to prevent these issues from occuring.  It would be nice if I could stop going to the chiropractor, and pocket the $40 spent on an alignment.
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Get in touch with a good chiropractor!  I'm a chiropractor's assistant and you would not believe how many people we help with all kinds of problems.  Good posture is important but, you might have subluxations that are causing you problems.  Only a chiropractor can tell you.  The good ones will not charge for the initial consultation.


How much minimum time require for teeth alignment treatment for 27 years old man ?


What are the treatments available for teeth alignment?
Are there any other treatments available for teeth alignment except  braces?
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Hi, I am Dr. Amit Goswami from Delhi Dental Center. As you have asked for the treatments available for teeth alignment, they are as follows:
You can opt for either of them –
1 – Conventional Metal Braces .
2 – Tooth Colored – Invisible braces.
3 – Ceramic braces
4 – Lingual braces. – use to be on the inside of tooth surface.

The removable thing which is there in orthodontics is meant for retainer purpose only.

You can read this link as it will solve most of your questions.
  
http://www.delhidentalcenter.com/orthodontic_dentistry.php

Time taken for the full treatment will be between 6 months to 1 ½ yrs.


How can I improve the stability and alignment of my joints during a growth spurt?


I know you are meant to avoid exercise whilst having a growth spurt because it affects the alignment of the kneecaps, but I was wondering; how would I go about adjusting the alignment of my joints to be more stable, flexible, etc. during my growth spurt?
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Well standing up straight is always good to align your posture but really you just need to keep active and fit. I have never heard of not doing excercise in a growth spurt I did and my kneecaps are fine!