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.Databases, Genetic: Databases devoted to knowledge about specific genes and gene products.Databases as Topic: Organized collections of computer records, standardized in format and content, that are stored in any of a variety of computer-readable modes. They are the basic sets of data from which computer-readable files are created. (from ALA Glossary of Library and Information Science, 1983)Databases, Protein: Databases containing information about PROTEINS such as AMINO ACID SEQUENCE; PROTEIN CONFORMATION; and other properties.Databases, Bibliographic: Extensive collections, reputedly complete, of references and citations to books, articles, publications, etc., generally on a single subject or specialized subject area. Databases can operate through automated files, libraries, or computer disks. The concept should be differentiated from DATABASES, FACTUAL which is used for collections of data and facts apart from bibliographic references to them.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.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.Information Storage and Retrieval: Organized activities related to the storage, location, search, and retrieval of information.Database Management Systems: Software designed to store, manipulate, manage, and control data for specific uses.Software: Sequential operating programs and data which instruct the functioning of a digital computer.User-Computer Interface: The portion of an interactive computer program that issues messages to and receives commands from a user.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.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)Algorithms: A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.Expressed Sequence Tags: Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived.Randomized Controlled Trials as Topic: Works about clinical trials that involve at least one test treatment and one control treatment, concurrent enrollment and follow-up of the test- and control-treated groups, and in which the treatments to be administered are selected by a random process, such as the use of a random-numbers table.Databases, Chemical: Databases devoted to knowledge about specific chemicals.MEDLINE: The premier bibliographic database of the NATIONAL LIBRARY OF MEDICINE. MEDLINE® (MEDLARS Online) is the primary subset of PUBMED and can be searched on NLM's Web site in PubMed or the NLM Gateway. MEDLINE references are indexed with MEDICAL SUBJECT HEADINGS (MeSH).Genomics: The systematic study of the complete DNA sequences (GENOME) of organisms.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.Data Mining: Use of sophisticated analysis tools to sort through, organize, examine, and combine large sets of information.Abstracting and Indexing as Topic: Activities performed to identify concepts and aspects of published information and research reports.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.Sequence Analysis, DNA: A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.Terminology as Topic: The terms, expressions, designations, or symbols used in a particular science, discipline, or specialized subject area.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.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.Information Systems: Integrated set of files, procedures, and equipment for the storage, manipulation, and retrieval of information.PubMed: A bibliographic database that includes MEDLINE as its primary subset. It is produced by the National Center for Biotechnology Information (NCBI), part of the NATIONAL LIBRARY OF MEDICINE. PubMed, which is searchable through NLM's Web site, also includes access to additional citations to selected life sciences journals not in MEDLINE, and links to other resources such as the full-text of articles at participating publishers' Web sites, NCBI's molecular biology databases, and PubMed Central.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.Databases, Pharmaceutical: Databases devoted to knowledge about PHARMACEUTICAL PRODUCTS.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)Online Systems: Systems where the input data enter the computer directly from the point of origin (usually a terminal or workstation) and/or in which output data are transmitted directly to that terminal point of origin. (Sippl, Computer Dictionary, 4th ed)Vocabulary, Controlled: A specified list of terms with a fixed and unalterable meaning, and from which a selection is made when CATALOGING; ABSTRACTING AND INDEXING; or searching BOOKS; JOURNALS AS TOPIC; and other documents. The control is intended to avoid the scattering of related subjects under different headings (SUBJECT HEADINGS). The list may be altered or extended only by the publisher or issuing agency. (From Harrod's Librarians' Glossary, 7th ed, p163)Molecular Sequence Annotation: The addition of descriptive information about the function or structure of a molecular sequence to its MOLECULAR SEQUENCE DATA record.Programming Languages: Specific languages used to prepare computer programs.Phylogeny: The relationships of groups of organisms as reflected by their genetic makeup.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.CD-ROM: An optical disk storage system for computers on which data can be read or from which data can be retrieved but not entered or modified. A CD-ROM unit is almost identical to the compact disk playback device for home use.Periodicals as Topic: A publication issued at stated, more or less regular, intervals.Search Engine: Software used to locate data or information stored in machine-readable form locally or at a distance such as an INTERNET site.Software Design: Specifications and instructions applied to the software.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.Evidence-Based Medicine: An approach of practicing medicine with the goal to improve and evaluate patient care. It requires the judicious integration of best research evidence with the patient's values to make decisions about medical care. This method is to help physicians make proper diagnosis, devise best testing plan, choose best treatment and methods of disease prevention, as well as develop guidelines for large groups of patients with the same disease. (from JAMA 296 (9), 2006)Treatment Outcome: Evaluation undertaken to assess the results or consequences of management and procedures used in combating disease in order to determine the efficacy, effectiveness, safety, and practicability of these interventions in individual cases or series.Review Literature as Topic: Published materials which provide an examination of recent or current literature. Review articles can cover a wide range of subject matter at various levels of completeness and comprehensiveness based on analyses of literature that may include research findings. The review may reflect the state of the art. It also includes reviews as a literary form.United StatesGenome: The genetic complement of an organism, including all of its GENES, as represented in its DNA, or in some cases, its RNA.Protein Interaction Mapping: Methods for determining interaction between PROTEINS.Base Sequence: The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.Knowledge Bases: Collections of facts, assumptions, beliefs, and heuristics that are used in combination with databases to achieve desired results, such as a diagnosis, an interpretation, or a solution to a problem (From McGraw Hill Dictionary of Scientific and Technical Terms, 6th ed).Publications: Copies of a work or document distributed to the public by sale, rental, lease, or lending. (From ALA Glossary of Library and Information Science, 1983, p181)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.Publication Bias: The influence of study results on the chances of publication and the tendency of investigators, reviewers, and editors to submit or accept manuscripts for publication based on the direction or strength of the study findings. Publication bias has an impact on the interpretation of clinical trials and meta-analyses. Bias can be minimized by insistence by editors on high-quality research, thorough literature reviews, acknowledgement of conflicts of interest, modification of peer review practices, etc.Cost-Benefit Analysis: A method of comparing the cost of a program with its expected benefits in dollars (or other currency). The benefit-to-cost ratio is a measure of total return expected per unit of money spent. This analysis generally excludes consideration of factors that are not measured ultimately in economic terms. Cost effectiveness compares alternative ways to achieve a specific set of results.Directories as Topic: Lists of persons or organizations, systematically arranged, usually in alphabetic or classed order, giving address, affiliations, etc., for individuals, and giving address, officers, functions, and similar data for organizations. (ALA Glossary of Library and Information Science, 1983)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.Medical Records Systems, Computerized: Computer-based systems for input, storage, display, retrieval, and printing of information contained in a patient's medical record.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.Risk Factors: An aspect of personal behavior or lifestyle, environmental exposure, or inborn or inherited characteristic, which, on the basis of epidemiologic evidence, is known to be associated with a health-related condition considered important to prevent.Natural Language Processing: Computer processing of a language with rules that reflect and describe current usage rather than prescribed usage.Medical Record Linkage: The creation and maintenance of medical and vital records in multiple institutions in a manner that will facilitate the combined use of the records of identified individuals.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.Research Design: A plan for collecting and utilizing data so that desired information can be obtained with sufficient precision or so that an hypothesis can be tested properly.Metabolic Networks and Pathways: Complex sets of enzymatic reactions connected to each other via their product and substrate metabolites.Meta-Analysis as Topic: A quantitative method of combining the results of independent studies (usually drawn from the published literature) and synthesizing summaries and conclusions which may be used to evaluate therapeutic effectiveness, plan new studies, etc., with application chiefly in the areas of research and medicine.Bibliometrics: The use of statistical methods in the analysis of a body of literature to reveal the historical development of subject fields and patterns of authorship, publication, and use. Formerly called statistical bibliography. (from The ALA Glossary of Library and Information Science, 1983)Pharmacoepidemiology: The science concerned with the benefit and risk of drugs used in populations and the analysis of the outcomes of drug therapies. Pharmacoepidemiologic data come from both clinical trials and epidemiological studies with emphasis on methods for the detection and evaluation of drug-related adverse effects, assessment of risk vs benefit ratios in drug therapy, patterns of drug utilization, the cost-effectiveness of specific drugs, methodology of postmarketing surveillance, and the relation between pharmacoepidemiology and the formulation and interpretation of regulatory guidelines. (Pharmacoepidemiol Drug Saf 1992;1(1); J Pharmacoepidemiol 1990;1(1))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.Genome, 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.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.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.Chromosome Mapping: Any method used for determining the location of and relative distances between genes on a chromosome.Proteome: The protein complement of an organism coded for by its genome.Great BritainArtificial 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.Genome, Plant: The genetic complement of a plant (PLANTS) as represented in its DNA.Subject Headings: Terms or expressions which provide the major means of access by subject to the bibliographic unit.Proteomics: The systematic study of the complete complement of proteins (PROTEOME) of organisms.Drug Information Services: Services providing pharmaceutic and therapeutic drug information and consultation.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.Medical Informatics: The field of information science concerned with the analysis and dissemination of medical data through the application of computers to various aspects of health care and medicine.Information Dissemination: The circulation or wide dispersal of information.Classification: The systematic arrangement of entities in any field into categories classes based on common characteristics such as properties, morphology, subject matter, etc.Unified Medical Language System: A research and development program initiated by the NATIONAL LIBRARY OF MEDICINE to build knowledge sources for the purpose of aiding the development of systems that help health professionals retrieve and integrate biomedical information. The knowledge sources can be used to link disparate information systems to overcome retrieval problems caused by differences in terminology and the scattering of relevant information across many databases. The three knowledge sources are the Metathesaurus, the Semantic Network, and the Specialist Lexicon.Informatics: The field of information science concerned with the analysis and dissemination of data through the application of computers.MEDLARS: A computerized biomedical bibliographic storage and retrieval system operated by the NATIONAL LIBRARY OF MEDICINE. MEDLARS stands for Medical Literature Analysis and Retrieval System, which was first introduced in 1964 and evolved into an online system in 1971 called MEDLINE (MEDLARS Online). As other online databases were developed, MEDLARS became the name of the entire NLM information system while MEDLINE became the name of the premier database. MEDLARS was used to produce the former printed Cumulated Index Medicus, and the printed monthly Index Medicus, until that publication ceased in December 2004.Data Collection: Systematic gathering of data for a particular purpose from various sources, including questionnaires, interviews, observation, existing records, and electronic devices. The process is usually preliminary to statistical analysis of the data.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)Molecular Biology: A discipline concerned with studying biological phenomena in terms of the chemical and physical interactions of molecules.Evolution, Molecular: The process of cumulative change at the level of DNA; RNA; and PROTEINS, over successive generations.International Classification of Diseases: A system of categories to which morbid entries are assigned according to established criteria. Included is the entire range of conditions in a manageable number of categories, grouped to facilitate mortality reporting. It is produced by the World Health Organization (From ICD-10, p1). The Clinical Modifications, produced by the UNITED STATES DEPT. OF HEALTH AND HUMAN SERVICES, are larger extensions used for morbidity and general epidemiological purposes, primarily in the U.S.Sequence Analysis, RNA: A multistage process that includes cloning, physical mapping, subcloning, sequencing, and information analysis of an RNA SEQUENCE.Dictionaries as Topic: Lists of words, usually in alphabetical order, giving information about form, pronunciation, etymology, grammar, and meaning.Pattern Recognition, Automated: In INFORMATION RETRIEVAL, machine-sensing or identification of visible patterns (shapes, forms, and configurations). (Harrod's Librarians' Glossary, 7th ed)Oligonucleotide Array Sequence Analysis: Hybridization of a nucleic acid sample to a very large set of OLIGONUCLEOTIDE PROBES, which have been attached individually in columns and rows to a solid support, to determine a BASE SEQUENCE, or to detect variations in a gene sequence, GENE EXPRESSION, or for GENE MAPPING.Biomedical Research: Research that involves the application of the natural sciences, especially biology and physiology, to medicine.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)Biomedical Technology: The application of technology to the solution of medical problems.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.Risk Assessment: The qualitative or quantitative estimation of the likelihood of adverse effects that may result from exposure to specified health hazards or from the absence of beneficial influences. (Last, Dictionary of Epidemiology, 1988)Incidence: The number of new cases of a given disease during a given period in a specified population. It also is used for the rate at which new events occur in a defined population. It is differentiated from PREVALENCE, which refers to all cases, new or old, in the population at a given time.Human Genome Project: A coordinated effort of researchers to map (CHROMOSOME MAPPING) and sequence (SEQUENCE ANALYSIS, DNA) the human GENOME.Outcome Assessment (Health Care): Research aimed at assessing the quality and effectiveness of health care as measured by the attainment of a specified end result or outcome. Measures include parameters such as improved health, lowered morbidity or mortality, and improvement of abnormal states (such as elevated blood pressure).Genome, Bacterial: The genetic complement of a BACTERIA as represented in its DNA.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).Publishing: "The business or profession of the commercial production and issuance of literature" (Webster's 3d). It includes the publisher, publication processes, editing and editors. Production may be by conventional printing methods or by electronic publishing.Retrospective Studies: Studies used to test etiologic hypotheses in which inferences about an exposure to putative causal factors are derived from data relating to characteristics of persons under study or to events or experiences in their past. The essential feature is that some of the persons under study have the disease or outcome of interest and their characteristics are compared with those of unaffected persons.Adverse Drug Reaction Reporting Systems: Systems developed for collecting reports from government agencies, manufacturers, hospitals, physicians, and other sources on adverse drug reactions.Data Interpretation, Statistical: Application of statistical procedures to analyze specific observed or assumed facts from a particular study.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)Cohort Studies: Studies in which subsets of a defined population are identified. These groups may or may not be exposed to factors hypothesized to influence the probability of the occurrence of a particular disease or other outcome. Cohorts are defined populations which, as a whole, are followed in an attempt to determine distinguishing subgroup characteristics.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.Technology Assessment, Biomedical: Evaluation of biomedical technology in relation to cost, efficacy, utilization, etc., and its future impact on social, ethical, and legal systems.Semantics: The relationships between symbols and their meanings.Controlled Clinical Trials as Topic: Works about clinical trials involving one or more test treatments, at least one control treatment, specified outcome measures for evaluating the studied intervention, and a bias-free method for assigning patients to the test treatment. The treatment may be drugs, devices, or procedures studied for diagnostic, therapeutic, or prophylactic effectiveness. Control measures include placebos, active medicines, no-treatment, dosage forms and regimens, historical comparisons, etc. When randomization using mathematical techniques, such as the use of a random numbers table, is employed to assign patients to test or control treatments, the trials are characterized as RANDOMIZED CONTROLLED TRIALS AS TOPIC.Records as Topic: The commitment in writing, as authentic evidence, of something having legal importance. The concept includes certificates of birth, death, etc., as well as hospital, medical, and other institutional records.Disease: A definite pathologic process with a characteristic set of signs and symptoms. It may affect the whole body or any of its parts, and its etiology, pathology, and prognosis may be known or unknown.Biology: One of the BIOLOGICAL SCIENCE DISCIPLINES concerned with the origin, structure, development, growth, function, genetics, and reproduction of animals, plants, and microorganisms.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.Automatic Data Processing: Data processing largely performed by automatic means.Reference Books: Books designed by the arrangement and treatment of their subject matter to be consulted for definite terms of information rather than to be read consecutively. Reference books include DICTIONARIES; ENCYCLOPEDIAS; ATLASES; etc. (From the ALA Glossary of Library and Information Science, 1983)Polymorphism, Single Nucleotide: A single nucleotide variation in a genetic sequence that occurs at appreciable frequency in the population.Odds Ratio: The ratio of two odds. The exposure-odds ratio for case control data is the ratio of the odds in favor of exposure among cases to the odds in favor of exposure among noncases. The disease-odds ratio for a cohort or cross section is the ratio of the odds in favor of disease among the exposed to the odds in favor of disease among the unexposed. The prevalence-odds ratio refers to an odds ratio derived cross-sectionally from studies of prevalent cases.EuropeHospital Information Systems: Integrated, computer-assisted systems designed to store, manipulate, and retrieve information concerned with the administrative and clinical aspects of providing medical services within the hospital.Toxicology: The science concerned with the detection, chemical composition, and biological action of toxic substances or poisons and the treatment and prevention of toxic manifestations.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)Computer Simulation: Computer-based representation of physical systems and phenomena such as chemical processes.Time Factors: Elements of limited time intervals, contributing to particular results or situations.Information Services: Organized services to provide information on any questions an individual might have using databases and other sources. (From Random House Unabridged Dictionary, 2d ed)Computer Systems: Systems composed of a computer or computers, peripheral equipment, such as disks, printers, and terminals, and telecommunications capabilities.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.Medical Informatics Computing: Precise procedural mathematical and logical operations utilized in the study of medical information pertaining to health care.Quality-Adjusted Life Years: A measurement index derived from a modification of standard life-table procedures and designed to take account of the quality as well as the duration of survival. This index can be used in assessing the outcome of health care procedures or services. (BIOETHICS Thesaurus, 1994)Genetic Variation: Genotypic differences observed among individuals in a population.Workflow: Description of pattern of recurrent functions or procedures frequently found in organizational processes, such as notification, decision, and action.Contig Mapping: Overlapping of cloned or sequenced DNA to construct a continuous region of a gene, chromosome or genome.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.Clinical Coding: Process of substituting a symbol or code for a term such as a diagnosis or procedure. (from Slee's Health Care Terms, 3d ed.)Registries: The systems and processes involved in the establishment, support, management, and operation of registers, e.g., disease registers.Software Validation: The act of testing the software for compliance with a standard.Transcriptome: The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.Computer Security: Protective measures against unauthorized access to or interference with computer operating systems, telecommunications, or data structures, especially the modification, deletion, destruction, or release of data in computers. It includes methods of forestalling interference by computer viruses or so-called computer hackers aiming to compromise stored data.Pharmaceutical Preparations: Drugs intended for human or veterinary use, presented in their finished dosage form. Included here are materials used in the preparation and/or formulation of the finished dosage form.Canada: The largest country in North America, comprising 10 provinces and three territories. Its capital is Ottawa.Hospitalization: The confinement of a patient in a hospital.Forensic Genetics: The application of genetic analyses and MOLECULAR DIAGNOSTIC TECHNIQUES to legal matters and crime analysis.Health Services Research: The integration of epidemiologic, sociological, economic, and other analytic sciences in the study of health services. Health services research is usually concerned with relationships between need, demand, supply, use, and outcome of health services. The aim of the research is evaluation, particularly in terms of structure, process, output, and outcome. (From Last, Dictionary of Epidemiology, 2d ed)Catalogs as Topic: Ordered compilations of item descriptions and sufficient information to afford access to them.Neoplasms: New abnormal growth of tissue. Malignant neoplasms show a greater degree of anaplasia and have the properties of invasion and metastasis, compared to benign neoplasms.Drug-Related Side Effects and Adverse Reactions: Disorders that result from the intended use of PHARMACEUTICAL PREPARATIONS. Included in this heading are a broad variety of chemically-induced adverse conditions due to toxicity, DRUG INTERACTIONS, and metabolic effects of pharmaceuticals.Data Display: The visual display of data in a man-machine system. An example is when data is called from the computer and transmitted to a CATHODE RAY TUBE DISPLAY or LIQUID CRYSTAL display.Clinical Trials as Topic: Works about pre-planned studies of the safety, efficacy, or optimum dosage schedule (if appropriate) of one or more diagnostic, therapeutic, or prophylactic drugs, devices, or techniques selected according to predetermined criteria of eligibility and observed for predefined evidence of favorable and unfavorable effects. This concept includes clinical trials conducted both in the U.S. and in other countries.Confidentiality: The privacy of information and its protection against unauthorized disclosure.Models, Economic: Statistical models of the production, distribution, and consumption of goods and services, as well as of financial considerations. For the application of statistics to the testing and quantifying of economic theories MODELS, ECONOMETRIC is available.Prevalence: The total number of cases of a given disease in a specified population at a designated time. It is differentiated from INCIDENCE, which refers to the number of new cases in the population at a given time.Metabolomics: The systematic identification and quantitation of all the metabolic products of a cell, tissue, organ, or organism under varying conditions. The METABOLOME of a cell or organism is a dynamic collection of metabolites which represent its net response to current conditions.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.Metabolism: The chemical reactions that occur within the cells, tissues, or an organism. These processes include both the biosynthesis (ANABOLISM) and the breakdown (CATABOLISM) of organic materials utilized by the living organism.United States Department of Veterans Affairs: A cabinet department in the Executive Branch of the United States Government concerned with overall planning, promoting, and administering programs pertaining to VETERANS. It was established March 15, 1989 as a Cabinet-level position.Genetic Diseases, Inborn: Diseases that are caused by genetic mutations present during embryo or fetal development, although they may be observed later in life. The mutations may be inherited from a parent's genome or they may be acquired in utero.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.Research: Critical and exhaustive investigation or experimentation, having for its aim the discovery of new facts and their correct interpretation, the revision of accepted conclusions, theories, or laws in the light of newly discovered facts, or the practical application of such new or revised conclusions, theories, or laws. (Webster, 3d ed)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.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.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.Infant, Newborn: An infant during the first month after birth.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.Genes, Plant: The functional hereditary units of PLANTS.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.Models, Molecular: Models used experimentally or theoretically to study molecular shape, electronic properties, or interactions; includes analogous molecules, computer-generated graphics, and mechanical structures.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.Protein Interaction Maps: Graphs representing sets of measurable, non-covalent physical contacts with specific PROTEINS in living organisms or in cells.Bias (Epidemiology): Any deviation of results or inferences from the truth, or processes leading to such deviation. Bias can result from several sources: one-sided or systematic variations in measurement from the true value (systematic error); flaws in study design; deviation of inferences, interpretations, or analyses based on flawed data or data collection; etc. There is no sense of prejudice or subjectivity implied in the assessment of bias under these conditions.Internationality: The quality or state of relating to or affecting two or more nations. (After Merriam-Webster Collegiate Dictionary, 10th ed)Names: Personal names, given or surname, as cultural characteristics, as ethnological or religious patterns, as indications of the geographic distribution of families and inbreeding, etc. Analysis of isonymy, the quality of having the same or similar names, is useful in the study of population genetics. NAMES is used also for the history of names or name changes of corporate bodies, such as medical societies, universities, hospitals, government agencies, etc.Insurance Claim Reporting: The design, completion, and filing of forms with the insurer.Pregnancy: The status during which female mammals carry their developing young (EMBRYOS or FETUSES) in utero before birth, beginning from FERTILIZATION to BIRTH.Epidemiologic Studies: Studies designed to examine associations, commonly, hypothesized causal relations. They are usually concerned with identifying or measuring the effects of risk factors or exposures. The common types of analytic study are CASE-CONTROL STUDIES; COHORT STUDIES; and CROSS-SECTIONAL STUDIES.Medical Informatics Applications: Automated systems applied to the patient care process including diagnosis, therapy, and systems of communicating medical data within the health care setting.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.Genetic Predisposition to Disease: A latent susceptibility to disease at the genetic level, which may be activated under certain conditions.Gene Regulatory Networks: Interacting DNA-encoded regulatory subsystems in the GENOME that coordinate input from activator and repressor TRANSCRIPTION FACTORS during development, cell differentiation, or in response to environmental cues. The networks function to ultimately specify expression of particular sets of GENES for specific conditions, times, or locations.Case-Control Studies: Studies which start with the identification of persons with a disease of interest and a control (comparison, referent) group without the disease. The relationship of an attribute to the disease is examined by comparing diseased and non-diseased persons with regard to the frequency or levels of the attribute in each group.Quebec: A province of eastern Canada. Its capital is Quebec. The region belonged to France from 1627 to 1763 when it was lost to the British. The name is from the Algonquian quilibek meaning the place where waters narrow, referring to the gradually narrowing channel of the St. Lawrence or to the narrows of the river at Cape Diamond. (From Webster's New Geographical Dictionary, 1988, p993 & Room, Brewer's Dictionary of Names, 1992, p440)Government Publications as Topic: Discussion of documents issued by local, regional, or national governments or by their agencies or subdivisions.Drug Prescriptions: Directions written for the obtaining and use of DRUGS.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.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)Ontario: A province of Canada lying between the provinces of Manitoba and Quebec. Its capital is Toronto. It takes its name from Lake Ontario which is said to represent the Iroquois oniatariio, beautiful lake. (From Webster's New Geographical Dictionary, 1988, p892 & Room, Brewer's Dictionary of Names, 1992, p391)Access to Information: Individual's rights to obtain and use information collected or generated by others.Patents as Topic: Exclusive legal rights or privileges applied to inventions, plants, etc.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.Forecasting: The prediction or projection of the nature of future problems or existing conditions based upon the extrapolation or interpretation of existing scientific data or by the application of scientific methodology.Electronic Health Records: Media that facilitate transportability of pertinent information concerning patient's illness across varied providers and geographic locations. Some versions include direct linkages to online consumer health information that is relevant to the health conditions and treatments related to a specific patient.Mass Spectrometry: An analytical method used in determining the identity of a chemical based on its mass using mass analyzers/mass spectrometers.Age Factors: Age as a constituent element or influence contributing to the production of a result. It may be applicable to the cause or the effect of a circumstance. It is used with human or animal concepts but should be differentiated from AGING, a physiological process, and TIME FACTORS which refers only to the passage of time.Observational Study as Topic: A clinical study in which participants may receive diagnostic, therapeutic, or other types of interventions, but the investigator does not assign participants to specific interventions (as in an interventional study).Forms and Records Control: A management function in which standards and guidelines are developed for the development, maintenance, and handling of forms and records.Genes: A category of nucleic acid sequences that function as units of heredity and which code for the basic instructions for the development, reproduction, and maintenance of organisms.

Relatedness of baculovirus and gypsy retrotransposon envelope proteins. (1/7499)

BACKGROUND: Current evidence suggests that lepidopteran baculoviruses may be divided into two phylogenetic groups based on their envelope fusion proteins. One group utilizes gp64, a low pH-dependent envelope fusion protein, whereas the other employs a protein family (e.g. LD130 in the Lymantria dispar nucleopolyhedrovirus) unrelated to gp64, but that is also low pH-dependent. Database searches with members of the LD130 protein family often record significant levels of homology to envelope proteins from a number of insect retrovirus-like transposable elements of the gypsy class. In this report, the significance of the homology between these two types of envelope proteins is analyzed. RESULTS: The significance of the alignment scores was evaluated using Z-scores that were calculated by comparing the observed alignment score to the distribution of scores obtained for alignments after one of the sequences was subjected to 100 random shuffles of its sequence. These analyses resulted in Z-scores of >9 for members of the LD130 family when compared to most gypsy envelope proteins. Furthermore, in addition to significant levels of sequence homology and the presence of predicted signal sequences and transmembrane domains, members of this family contain a possible a furin cleavage motif, a conserved motif downstream of this site, predicted coiled-coil domains, and a pattern of conserved cysteine residues. CONCLUSIONS: These analyses provide a link between envelope proteins from a group of insect retrovirus-like elements and a baculovirus protein family that includes low-pH-dependent envelope fusion proteins. The ability of gypsy retroelements to transpose from insect into baculovirus genomes suggests a pathway for the exchange of this protein between these viral families.  (+info)

Cultural aspects of cancer genetics: setting a research agenda. (2/7499)

BACKGROUND: Anecdotal evidence suggests that people from non-Anglo-Celtic backgrounds are under-represented at familial cancer clinics in the UK, the USA, and Australia. This article discusses cultural beliefs as a potential key barrier to access, reviews previous empirical research on cultural aspects of cancer genetics, draws implications from findings, and sets a research agenda on the inter-relationships between culture, cancer genetics, and kinship. METHODS: The CD-ROM databases MEDLINE, PsychLIT, CINAHL, and Sociological Abstracts were searched from 1980 onwards. RESULTS: Cultural aspects of cancer genetics is the focus of an emerging body of publications. Almost all studies assessed African-American women with a family history of breast cancer and few studies included more diverse samples, such as Americans of Ashkenazi Jewish background or Hawaiian- and Japanese-Americans. Our analysis of published reports suggests several directions for future research. First, an increased focus on various Asian societies appears warranted. Research outside North America could explore the extent to which findings can be replicated in other multicultural settings. In addition, control group designs are likely to benefit from systematically assessing culture based beliefs and cultural identity in the "majority culture" group used for comparative purposes. CONCLUSION: More data on which to base the provision of culturally appropriate familial cancer clinic services to ethnically diverse societies are needed. Empirical data will assist with culturally appropriate categorisation of people from other cultures into risk groups based on their family histories and provide the basis for the development of culturally appropriate patient education strategies and materials.  (+info)

An efficient algorithm for finding short approximate non-tandem repeats. (3/7499)

We study the problem of approximate non-tandem repeat extraction. Given a long subject string S of length N over a finite alphabet Sigma and a threshold D, we would like to find all short substrings of S of length P that repeat with at most D differences, i.e., insertions, deletions, and mismatches. We give a careful theoretical characterization of the set of seeds (i.e., some maximal exact repeats) required by the algorithm, and prove a sublinear bound on their expected numbers. Using this result, we present a sub-quadratic algorithm for finding all short (i.e., of length O(log N)) approximate repeats. The running time of our algorithm is O(DN(3pow(epsilon)-1)log N), where epsilon = D/P and pow(epsilon) is an increasing, concave function that is 0 when epsilon = 0 and about 0.9 for DNA and protein sequences.  (+info)

Fast optimal leaf ordering for hierarchical clustering. (4/7499)

We present the first practical algorithm for the optimal linear leaf ordering of trees that are generated by hierarchical clustering. Hierarchical clustering has been extensively used to analyze gene expression data, and we show how optimal leaf ordering can reveal biological structure that is not observed with an existing heuristic ordering method. For a tree with n leaves, there are 2(n-1) linear orderings consistent with the structure of the tree. Our optimal leaf ordering algorithm runs in time O(n(4)), and we present further improvements that make the running time of our algorithm practical.  (+info)

GEST: a gene expression search tool based on a novel Bayesian similarity metric. (5/7499)

Gene expression array technology has made possible the assay of expression levels of tens of thousands of genes at a time; large databases of such measurements are currently under construction. One important use of such databases is the ability to search for experiments that have similar gene expression levels as a query, potentially identifying previously unsuspected relationships among cellular states. Such searches depend crucially on the metric used to assess the similarity between pairs of experiments. The complex joint distribution of gene expression levels, particularly their correlational structure and non-normality, make simple similarity metrics such as Euclidean distance or correlational similarity scores suboptimal for use in this application. We present a similarity metric for gene expression array experiments that takes into account the complex joint distribution of expression values. We provide a computationally tractable approximation to this measure, and have implemented a database search tool based on it. We discuss implementation issues and efficiency, and we compare our new metric to other standard metrics.  (+info)

New approaches for reconstructing phylogenies from gene order data. (6/7499)

We report on new techniques we have developed for reconstructing phylogenies on whole genomes. Our mathematical techniques include new polynomial-time methods for bounding the inversion length of a candidate tree and new polynomial-time methods for estimating genomic distances which greatly improve the accuracy of neighbor-joining analyses. We demonstrate the power of these techniques through an extensive performance study based on simulating genome evolution under a wide range of model conditions. Combining these new tools with standard approaches (fast reconstruction with neighbor-joining, exploration of all possible refinements of strict consensus trees, etc.) has allowed us to analyze datasets that were previously considered computationally impractical. In particular, we have conducted a complete phylogenetic analysis of a subset of the Campanulaceae family, confirming various conjectures about the relationships among members of the subset and about the principal mechanism of evolution for their chloroplast genome. We give representative results of the extensive experimentation we conducted on both real and simulated datasets in order to validate and characterize our approaches. We find that our techniques provide very accurate reconstructions of the true tree topology even when the data are generated by processes that include a significant fraction of transpositions and when the data are close to saturation.  (+info)

Designing fast converging phylogenetic methods. (7/7499)

Absolute fast converging phylogenetic reconstruction methods are provably guaranteed to recover the true tree with high probability from sequences that grow only polynomially in the number of leaves, once the edge lengths are bounded arbitrarily from above and below. Only a few methods have been determined to be absolute fast converging; these have all been developed in just the last few years, and most are polynomial time. In this paper, we compare pre-existing fast converging methods as well as some new polynomial time methods that we have developed. Our study, based upon simulating evolution under a wide range of model conditions, establishes that our new methods outperform both neighbor joining and the previous fast converging methods, returning very accurate large trees, when these other methods do poorly.  (+info)

Inferring subnetworks from perturbed expression profiles. (8/7499)

Genome-wide expression profiles of genetic mutants provide a wide variety of measurements of cellular responses to perturbations. Typical analysis of such data identifies genes affected by perturbation and uses clustering to group genes of similar function. In this paper we discover a finer structure of interactions between genes, such as causality, mediation, activation, and inhibition by using a Bayesian network framework. We extend this framework to correctly handle perturbations, and to identify significant subnetworks of interacting genes. We apply this method to expression data of S. cerevisiae mutants and uncover a variety of structured metabolic, signaling and regulatory pathways.  (+info)

2007 (English)In: The Ethics and Governance of Human Genetic Databases: European Perspectives / [ed] Matti Häyry, Ruth Chadwick, Vilhjálmur Árnason & Gardar Árnason, Cambridge: Cambridge University Press, 2007, no 4, 108-119 p.Chapter in book (Other academic) ...
770 full-length cDNAs. Analysis of the mouse transcriptome based on functional annotation of 60s profile, publications, research topics, and co-authors
The Gene Expression Database (GXD) is a community resource that stores and integrates expression information for the laboratory mouse, with a particular emphasis on mouse development, and makes these data freely available in formats appropriate for comprehensive analysis. GXD is implemented as a relational database and integrated with the Mouse Genome Database (MGD) to enable global analysis of genotype, expression and phenotype information. Interconnections with sequence databases and with databases from other species further extend GXDs utility for the analysis of gene expression data. GXD is available through the Mouse Genome Informatics Web Site at http://www.informatics.jax.org/
In a continuation of a 2014 conference that explored regulatory considerations and strategies for next-generation sequencing, the Friends of Cancer Research, with support from Alexandria Real Estate Equities, Inc, Pasadena, California, met to discuss the issues and problems of coordinating drug and diagnostic development, specifically the use of curated databases.. Ellen V. Sigal, PhD, Chair and Founder of Friends of Cancer Research, introduced the gathering by noting that high-throughput genomic technologies, including next-generation sequencing, allow for rapid assessment of many analytes and can help predict patients risk of developing certain cancers and how they might respond to therapies. "There are many advantages of high-throughput sequencing over that of a single analyte, but demonstrating its adequacy for clinical use is challenging, particularly the tension between the need to ensure validity and the practical limitations of submitting data for every possible variant.". She added ...
TY - JOUR. T1 - Analysis of the mouse transcriptome for genes involved in the function of the nervous system. AU - Gustincich, Stefano. AU - Batalov, Serge. AU - Beisel, Kirk W.. AU - Bono, Hidemasa. AU - Carninci, Piero. AU - Fletcher, Colin F.. AU - Grimmond, Sean. AU - Hirokawa, Nobutaka. AU - Jarvis, Erich D.. AU - Jegla, Tim. AU - Kawasawa, Yuka. AU - LeMieux, Julianna. AU - Miki, Harukata. AU - Raviola, Elio. AU - Teasdale, Rohan D.. AU - Tominaga, Naoko. AU - Yagi, Ken. AU - Zimmer, Andreas. AU - Arakawa, Takahiro. AU - Waki, Kazunori. AU - Kawai, Jun. AU - Hayashizaki, Yoshihide. AU - Okazaki, Yasushi. PY - 2003/6/1. Y1 - 2003/6/1. N2 - We analyzed the mouse Representative Transcript and Protein Set for molecules involved in brain function. We found full-length cDNAs of many known brain genes and discovered new members of known brain gene families, including Family 3 G-protein coupled receptors, voltage-gated channels, and connexins. We also identified previously unknown candidates for ...
The rich knowledge of morphological variation among organisms reported in the systematic literature has remained in free-text format, impractical for use in large-scale synthetic phylogenetic work. This noncomputable format has also precluded linkage to the large knowledgebase of genomic, genetic, developmental, and phenotype data in model organism databases. We have undertaken an effort to prototype a curated, ontology-based evolutionary morphology database that maps to these genetic databases (http://kb.phenoscape.org) to facilitate investigation into the mechanistic basis and evolution of phenotypic diversity. Among the first requirements in establishing this database was the development of a multispecies anatomy ontology with the goal of capturing anatomical data in a systematic and computable manner. An ontology is a formal representation of a set of concepts with defined relationships between those concepts. Multispecies anatomy ontologies in particular are an efficient way to represent ...
The "browser" lines at the beginning of the custom track indicate which native tracks to turn on along their visibilities, while the "hide all" line turns all the other native tracks off. In addition to these basic instructions there are many more examples on the UCSC Genome Browser Wiki.. What about when you want to view a genome and annotations not hosted on our site? If you have a FASTA file of your genome available, you can use faToTwoBit to convert your genome into a 2bit file, then make an assembly hub out of your data. Once youve created your hub, you can view the hub with the hubUrl setting. As an example, I have hosted an assembly hub for Arabadopsis thaliana here, and I can view the hub via a single URL like so ...
The GMOD project is a confederation of intercompatible open-source projects developing software tools for storing, managing, curating, and publishing biological data. Although the GMOD project originated from the goal of developing a generic tool set for common needs among model organism databases, GMOD tools are meanwhile used by many large and small, collaborative and single-investigator biological database projects for the dissemination of results of experimental research and curated knowledge. GMODs software tools provide a powerful and feature-rich basis for working with biological, in particular genomic and other molecular data. However, due to GMODs historical emphasis on single-genome projects many GMOD tools still lack features that are critical to effectively support the comparative, phylogenetic, and natural diversity-oriented questions frequently asked in evolutionary research. Recent developments have given rise to a window of opportunity for forging collaborations towards filling ...
Researchers from the University of Maryland School of Medicines (UMSOM) Institute for Genome Sciences (IGS) have created VIRGO (human vaginal non-redundant gene catalog): the first genomic catalog of the vaginal microbiome.
To whom it may concern: The completion of the sequencing of the entire DNA of the S. cerevisae genome, is a major event in the history of biology. All those involved are to be congratulated as we now have the first full genetic blueprint of a free living eukaryotic organism. The analysis of these gene products will provide us with a powerful tool for reading the genomes of other eukaryotes, particularly those of higher eukaryotes, which represent the majority of the data currently in the genetic databases. The analysis of the yeast genome is provided a useful framework for the annotation of many of the complete genome projects currently nearing completion, as well as the upcoming human genome. The yeast sequence information used to create this yeast webpage was provided by the GeneQuiz Consortium and the Mips Genome Commission . We have made an initial attempt to integrate these two data structures as well as supplement their annotation with that obtained ,From a set of functionally diagnostic ...
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SO is a collaborative ontology project for the definition of sequence features used in biological sequence annotation. SO was initially developed by the Gene Ontology Consortium. Contributors to SO include the GMOD community, model organism database groups such as WormBase, FlyBase, Mouse Genome Informatics group, and institutes such as the Sanger Institute and the EBI. Input to SO is welcomed from the sequence annotation community. The OBO revision is available here: http://sourceforge.net/p/song/svn/HEAD/tree ...
Notice to our users== Please help us to improve this small molecules wiki and our other wikis by registering for a wiki account through our normal feedback email. ==Important small molecule references== *[http://www.xenbase.org/literature/article.do?method=display&articleId=35021 Database of Small Molecules by Feldman and Hogue 2006] at [https://pubchem.ncbi.nlm.nih.gov/ PubChem] *[http://www.xenbase.org/literature/article.do?method=display&articleId=47903 Wnt/Notch by Myers and Krieg 2014] *[http://www.xenbase.org/literature/article.do?method=display&articleId=970 Ubiquitin-proteasome by Salic and King 2005] ==Alphabetical List of Small Molecules With Literature References== *[[1,3-Dicyclohexylurea]] *[[11-cis retinal]] *[[18alpha-glycyrretinic acid]] *[[2-deoxyadenosine]] *[[2-APB]] *[[2-Deoxyglucose]] *[[3,3,5-triiodothyronine (T3)]] *[[5HT (seratonin)]] *[[8-Pcpt-2-O-Me-cAMP-AM]] *[[activin]] *[[Adenosine, periodate oxidized]] *[[AG1296]] *[[AG1879]] *[[AGN193109]] *[[alpha-amanitin]] ...
An integrated database resource consisting of 16 main databases, which are categorized into systems, genomic, chemical and health information. The PATHWAY, BRITE and MODULE databases in the systems information category contain KEGG pathway maps, BRITE hierarchy and table files and KEGG modules, respectively, as representations of high-level functions. They are all manually created based on published literature. The genomic information category contains the GENOME and GENES databases for collections of organisms with complete genomes and their gene catalogs, which are mostly taken from RefSeq and GenBank databases. The COMPOUND, GLYCAN, REACTION, RPAIR, RCLASS and ENZYME databases in the chemical information category contain chemical substances and reactions and are collectively called KEGG LIGAND for historical reasons. The health information category consists of the DISEASE, DRUG, DGROUP and ENVIRON databases for disease and drug information.
The list of gene annotated to the pathway term are provided by species, in a tabular form that can be sorted by several criteria (thin arrow). The default is the set of rat genes with choices for the mouse and human genes (thick arrow). The table provides links to the GBrowse tool for the rat and human genes [for more on GBrowse see the help page available here] and the references used in the annotation process along with information on the chromosome, start and stop positions. The A icon at the far right end of an entry, stands for Annotations and provides a link to a page with all the annotations for that gene across all ontologies RGD is using. Note that one can select to see annotations to the term and the terms descendants or only to the term by selecting or deselecting the box show annotations for terms descendants, respectively (thin arrow). Clicking on the icon tree to the right of the pathways name (circled), here interleukin-1 signaling pathway brings up the tree view of the ...
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Web Portal for International Cancer Research: Cancer Epidemiology and Genetic Databases, Research Programmes, Electronic Publications, Scientific Papers, IARC Press Releases, IARC Training Courses, IARC Fellowships for Cancer Research, IARC Meetings, etc
Strain reports include a comprehensive description of function and biological process as well as disease, expression, regulation and phenotype information.
Table 1. Expression of chondroadherin in mouse ocular tissues. Summary of expression analyses for chondroadherin in mouse ocular tissues based upon RT-PCR, in situ hybridization, and immunohistochemistry. The minus sign indicates no expression by immunochistochemistry; the ± sign indicates low expression by immunohistochemistry; the single plus sign indicates moderate expression by immunochistochemistry; and the triple plus sign indicates high expression by immunohistochemsitry. The cornea, lens, and retina were all positive by PCR and by in situ hybridization, while the retina was also positive by the following entries from the Gene Expression Omnibus (GEO) profiles (Entry: GDS592,GPL1073, Experiment: Large scale analysis of the mouse transcriptiome; Entry: GDS182,GPL81, Experiment: Large scale analysis of the mouse transcriptome).. ...
TL;DR: NIH are scaling back funding on model organism databases, which will degrade annotation quality. This can have far-reaching implications in many aspects of biology and computational biology. Theres a letter you can sign electronically, please do. ,http://www.genetics-gsa.org/MODsupport, I am hoping to write a more detailed post on why this is important, but for the […]. ...
If using the UCSC Genes track, consider showing only one transcript per gene by turning off splice variants on the track configuration page ...
On the web site the seem to define this project as an attempt to "collect variation causing disease (mutations) in all genes world wide" so I guess that is what variome means to them. So - I wonder here - what is wrong with "polymorphisms ...
InnateDB is a publicly available database of the genes, proteins, experimentally-verified interactions and signaling pathways involved in the innate immune response of humans, mice and bovines to microbial infection. The database captures an improved coverage of the innate immunity interactome by integrating known interactions and pathways from major public databases together with manually-curated data into a centralised resource. The database can be mined as a knowledgebase or used with our integrated bioinformatics and visualization tools for the systems level analysis of the innate immune response ...
Search for terms in track descriptions, groups, and names. If multiple terms are entered, only tracks with all terms will be part of the results ...
Search for terms in track descriptions, groups, and names. If multiple terms are entered, only tracks with all terms will be part of the results ...
What can I find? DNA methylation, transcription factor binding sites, histone modifications, and regulatory features such as enhancers and repressors, and microarray annotations.. ...
Property "Dpi dataset" (as page type) with input value "{{{DPIdataset}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "TSS like by RIKEN classifier" (as page type) with input value "{{{TSSclassifier}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "DHS support" (as page type) with input value "{{{DHSsupport}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. ...
Property "Dpi dataset" (as page type) with input value "{{{DPIdataset}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "TSS like by RIKEN classifier" (as page type) with input value "{{{TSSclassifier}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "DHS support" (as page type) with input value "{{{DHSsupport}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. ...
Datasets are collections of data. BioGPS has thousands of datasets available for browsing and which can be easily viewed in our interactive data chart. Learn more.. ...
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chr1:182842526-183063694, + strand. Annotation of mouse strain SPRET/EiJ genome assembly provided by the University of California Santa Cruz (UCSC) Genome Browser Group and the Wellcome Sanger Institutes Mouse Genomes Project (MGP). Distributed via Ensembl Release 92. Gene type: protein coding gene; Gene Name: Cdc42bpa ...
chr2:58705780-58831955, - strand. Annotation of mouse strain CAROLI/EiJ genome assembly provided by the University of California Santa Cruz (UCSC) Genome Browser Group and the Wellcome Sanger Institutes Mouse Genomes Project (MGP). Distributed via Ensembl Release 92. Gene type: protein coding gene; Gene Name: Fign ...
A list of Go definitions, with pointers to parent nodes. Read from the .obo file. The user may construct the explicit hierachy by storing these in a Map or similar ...
Datasets are collections of data. BioGPS has thousands of datasets available for browsing and which can be easily viewed in our interactive data chart. Learn more.. ...
p,Transcripts predicted by comparative Augustus with RNA-seq information. Predicted with a coding model, but not guaranteed to have a ORF with homology to known proteins.,/p,Unknown likely coding ...
Search the selected model organism database for genes or proteins by a variety of criteria, including name, sequence size or location, evidence code, GO term, publication, etc.
We found that human genome coding regions annotated by computers have different kinds of many errors in public domain through homologous BLAST of our cloned genes in non-redundant (nr) database, including insertions, deletions or mutations of one base pair or a segment in sequences at the cDNA level …
This detailed view shows all details of the selected patient, including all variants reported in this patient. At the bottom of the page, all variants reported in this patient are listed, with the one you are looking at in bold. The link to the UCSC Genome Browser will show the browser zoomed in to the location of the selected variant ...
We have used all reasonable efforts to ensure that the information displayed on these pages and contained in the databases is of high quality. We make no warranty, express or implied, as to its accuracy or that the information is fit for a particular purpose, and will not be held responsible for any consequences arising out of any inaccuracies or omissions. Individuals, organisations and companies which use this database do so on the understanding that no liability whatsoever either direct or indirect shall rest upon the curator(s) or any of their employees or agents for the effects of any product, process or method that may be produced or adopted by any part, notwithstanding that the formulation of such product, process or method may be based upon information here provided ...
Miller W, Rosenbloom K, Hardison RC, Hou M, Taylor J, Raney B, Burhans R, King DC, Baertsch R, Blankenberg D, Kosakovsky Pond SL, Nekrutenko A, Giardine B, Harris RS, Tyekucheva S, Diekhans M, Pringle TH, Murphy WJ, Lesk A, Weinstock GM, Lindblad-Toh K, Gibbs RA, Lander ES, Siepel A, Haussler D, Kent WJ. 28-way vertebrate alignment and conservation track in the UCSC Genome Browser. Genome Res. 2007 Dec; 17(12):1797-808. PMID: 17984227; PMCID: PMC2099589. ...
Complete information for COL16A1 gene (Protein Coding), Collagen Type XVI Alpha 1 Chain, including: function, proteins, disorders, pathways, orthologs, and expression. GeneCards - The Human Gene Compendium
Possemato A (2008) CST Curation Set: 5213; Year: 2008; Biosample/Treatment: cell line, HCT116/untreated; Disease: colorectal carcinoma; SILAC: -; Specificities of Antibodies Used to Purify Peptides prior to LCMS: acK Antibodies Used to Purify Peptides prior to LCMS: Acetylated-Lysine (Ac-K2-100) Rabbit mAb Cat#: 9814, PTMScan(R) Acetyl-Lys Motif (Ac-K) Immunoaffinity Beads Cat#: 1989 ...
Guo A (2010) CST Curation Set: 10264; Year: 2010; Biosample/Treatment: cell line, U266/untreated; Disease: -; SILAC: -; Specificities of Antibodies Used to Purify Peptides prior to LCMS: Ub(K-e-GG) Antibodies Used to Purify Peptides prior to LCMS: Ubiquitin (D4A7A10) XP(R) Rabbit mAb Cat#: 3925, PTMScan(R) Ubiquitin Branch Motif (K-e-GG) Immunoaffinity Beads Cat#: 1990 ...
Since 1984, MMP, Inc. brings a concept of highly individualized assistance and service, striving to provide our clientele with unique resources. At MMP our mission is to manufacture raw materials of the highest quality for cosmetic and personal care applications with customized service. Our team is continuously working on the development of... Learn more » ...
Combining tracking of SAR units, personnel, vessels, missions, training, equipment, and administrative data across the region in a single web accessible database with dynamic links to other data sources (RCC) and endless potential for growth.
We have siRNA for most human, mouse and rat genes. To find siRNA for your gene, first search for your gene (using a gene name, gene ID or gene accession number) using the search tool bar, and then click on the ��siRNA�� hyperlink on the right hand side of your intended gene description in the ��Genes�� results field ...
The NCBI GEO and ArrayExpress databases were extensively searched for environmental conditions leading to apoptosis in 293T cells and genes differentially expressed under these conditions. The following data was obtained: ...
v1.2.014963.t1(symbB.v1.2.014963.t1) v1.2.023547.t1(symbB.v1.2.023547.t1) v1.2.027690.t1(symbB.v1.2.027690.t1) v1.2.027690.t2(symbB.v1.2.027690.t2) v1.2.027690.t3(symbB.v1.2.027690.t3) v1.2.032089.t1(symbB.v1.2.032089.t1) v1.2.032880.t1(symbB.v1.2.032880.t1 ...
v1.2.007921.t2(symbB.v1.2.007921.t2) v1.2.007922.t1(symbB.v1.2.007922.t1) v1.2.007922.t2(symbB.v1.2.007922.t2) v1.2.007922.t3(symbB.v1.2.007922.t3) v1.2.016339.t1(symbB.v1.2.016339.t1 ...
de Leeuw N, Dijkhuizen T, Hehir-Kwa JY, Carter NP, Feuk L, Firth HV, Kuhn RM, Ledbetter DH, Martin CL, van Ravenswaaij-Arts CM, Scherer SW, Shams S, Van Vooren S, Sijmons R, Swertz M, Hastings R. Diagnostic interpretation of array data using public databases and internet sources. Hum Mutat. 2012 Jun;33(6):930-40. PMID: 26285306; PMC: PMC5027376 Dreszer TR, Karolchik D, Zweig AS, Hinrichs AS, Raney BJ, Kuhn RM, Meyer LR, Wong M, Sloan CA, Rosenbloom KR, Roe G, Rhead B, Pohl A, Malladi VS, Li CH, Learned K, Kirkup V, Hsu F, Harte RA, Guruvadoo L, Goldman M, Giardine BM, Fujita PA, Diekhans M, Cline MS, Clawson H, Barber GP, Haussler D, Kent WJ The UCSC Genome Browser database: extensions and updates 2011. Nucleic Acids Res. 2012 Jan;40(Database issue):D918-23. PMID: 22086951; PMC: PMC3245018. ENCODE Project Consortium, Dunham I, Kundaje A, Aldred SF, Collins PJ, Davis CA, Doyle F, Epstein CB, Frietze S, Harrow J et al. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012 ...
PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.
Accessing and exploring large-scale genomics data sets remains a significant challenge to researchers without specialist bioinformatics training. We present the integrated PlantGenIE.org platform for exploration of Populus, conifer and Arabidopsis genomics data, which includes expression networks and associated visualization tools. Standard features of a model organism database are provided, including genome browsers, gene list annotation, BLAST homology searches and gene information pages. Community annotation updating is supported via integration of WebApollo. ...
The mouse genome database (MGD, http://www.informatics.jax.org/), the international community database for mouse, provides access to extensive integrated data on the genetics, genomics and biology of the laboratory mouse. The mouse is an excellent and unique animal surrogate for studying normal development and disease processes in humans. Thus, MGDs primary goals are to facilitate the use of mouse models for studying human disease and enable the development of translational research hypotheses based on comparative genotype, phenotype and functional analyses. Core MGD data content includes gene characterization and functions, phenotype and disease model descriptions, DNA and protein sequence data, polymorphisms, gene mapping data and genome coordinates, and comparative gene data focused on mammals. Data are integrated from diverse sources, ranging from major resource centers to individual investigator laboratories and the scientific literature, using a combination of automated processes and
A program written by UCSC student Jim Kent, called GigAssembler, is used to periodically assemble a widely used public draft version of the human genome sequence using updated data from GenBank at the National Center For Biotechnology Information (NCBI). This assembly is steadily improving as the the public sequencing consortium churns out new data. We will look at the coverage statistics on the latest assembly, and then look at web tools to explore it, and what they find. The three most widely used public annotation browsers are the UCSC Genome browser (genome.ucsc.edu), the Ensembl genome browser (www.ensembl.org), and the NCBI map viewer (www.ncbi.nlm.nih.gov/genome/guide), the latter based on NCBIs own sequence assembly. We will focus on the UCSC browser, which shows a rich variety of data mapped to the genome sequence, including predicted genes, expressed sequence tags, full length mRNAs, genetic and radiation hybrid map markers, cytogenetically mapped clones, single nucleotide ...
Don Gilbert pointed out that cheap short sequencers are now available. Lots of people have inexpensive sequnces, but there still is no way to do cheap annotation. Current GMOD clients are species or family centered. Want to make it easy to integrate multiple species. ApiDB is at the point of opening new species databases and web sites with relatively little effort. Comparative genomics came up over and over again, both across species and within species. As data grows and is consolidated, issues of who owns the data and whos responsible for the annotation become more problematic. How does GMOD want to deal with integration issues? How close to the sequencer does GMOD want to get? We dont want to pull the data off the sequencer. Should we position GMOD as something that can feed data into places like Ensembl? Ensembl does not have curation expertise of the MODs. Even if NCBI is wonderful at consolidation, they wont have quality curation. GMOD sits right there, supporting curation. So, we doubt ...
RiceGE : Rice Functional Genomics Database. gebd Rice Genome Browser. iSect Tools, iView Tools and Gene Expression Atlas. Collection of Rice T-DNA/Ds, Rice cDNA, Marker, EST, MPSS, SAGE, Arabidopsis, Maize, Wheat, Barley Homology, Rice Tiling Array and Gene Expression Data. Created and developed by Huaming Chen
RiceGE : Rice Functional Genomics Database. gebd Rice Genome Browser. iSect Tools, iView Tools and Gene Expression Atlas. Collection of Rice T-DNA/Ds, Rice cDNA, Marker, EST, MPSS, SAGE, Arabidopsis, Maize, Wheat, Barley Homology, Rice Tiling Array and Gene Expression Data. Created and developed by Huaming Chen
Dear Pegah Tavakolkhah, , I have one more question. I have read in the description of some GOs , that they are involved in apoptosis or angiogenesis (which are the main , reasons of cancer). I wanted to know if apoptosis or angiogenesis are GO , themselves. And if they are, would their descendant GOs show the GOs , which are responsible for these two processes? If you do a search for terms either using GOOSE or using AmiGO (http://amigo.geneontology.org/), you can find the GO terms apoptosis (GO:0006915; http://amigo.geneontology.org/cgi-bin/amigo/term-details.cgi?term=GO:0006915) and angiogenesis (GO:0001525; http://amigo.geneontology.org/cgi-bin/amigo/term-details.cgi?term=GO:0001525). You can find the gene products that have been associated with these processes (and the more specific child processes), either by choosing the gene product associations link in AmiGO, or by using GOOSE to query the GO database. I hope that is helpful; if you have any more questions, please dont hesitate to ...
GO annotations: Mouse from MGI; Human from GO Annotations @ EBI (GOA); Rat from RGD; Chicken from GOA; Fly from FlyBase; Pfalc from PlasmoDB; Worm from WormBase; Dicty from dictyBase; Yeast from SGD; Zfin from ZFIN; Tair from TAIR/TIGR; Rice from Gramene; Pombe from Sanger GeneDB ...
Representation and depiction of phenotype information at SOC and HLT level. (A) We used the hierarchical information of the MedDRA ontology to map all phenotypi
FatiGO is a web-accessible application that functions in much the same way as DAVIDs GoCharts, including the ability to specify term-specificity level. Unlike DAVID, FatiGO does not allow the setting of a minimum hit threshold for simplified viewing of only the most highly represented functional categories. Likewise, FatiGO limits the graphical output to only one top-level GO category at a time, whereas DAVID allows the combined viewing of biological process, molecular function, and cellular component annotations simultaneously. FatiGOs static barchart output looks very similar to DAVIDs GoChart; an important distinction is that DAVIDs GoCharts are dynamic, allowing users to drill-down and traverse the GO hierarchy for any subset of genes, view the underlying chart data and associated annotations, and link out to external data repositories including LocusLink and QuickGO. As shown in Table 3 the majority of accession types accepted and functional annotations offered by DAVID are not ...
Description: This session displays a region of the LHX6 gene that highlights a selection of the new tracks added in the previous year for the hg38/GRCh38 human assembly. The tracks shown in this display (from top to bottom) include GENCODE Genes V22, transcription levels assayed across 9 ENCODE cell lines, DNase hypersensitive regions based on data from 95 ENCODE cell lines, genome-wide conservation scores calculated using phastCons, a multiple genome alignment created using Lastz and Multiz, and pathogenic CNVs from the ClinGen database. Adapted from Figure 1 in Speir, et al. The UCSC Genome Browser database: 2016 update. Nucleic Acids Res. 2016 Jan 4;44(D1):D717-25: http://nar.oxfordjournals.org/content/44/D1/D717. ...
Description: This session displays a region of the LHX6 gene that highlights a selection of the new tracks added in the previous year for the hg38/GRCh38 human assembly. The tracks shown in this display (from top to bottom) include GENCODE Genes V22, transcription levels assayed across 9 ENCODE cell lines, DNase hypersensitive regions based on data from 95 ENCODE cell lines, genome-wide conservation scores calculated using phastCons, a multiple genome alignment created using Lastz and Multiz, and pathogenic CNVs from the ClinGen database. Adapted from Figure 1 in Speir, et al. The UCSC Genome Browser database: 2016 update. Nucleic Acids Res. 2016 Jan 4;44(D1):D717-25: http://nar.oxfordjournals.org/content/44/D1/D717. ...
Symbol: This is the official symbol assigned to this strain according to the strain nomenclature guidelines. This is a combination of strain and substrain designations for inbred strains (or symbol and ILAR code for other strain types).. Strain: The official strain symbol.. Substrain: The official substrain symbol - this can be a collection of ILAR lab codes defining the history of this particular strain. Can also be found in pulldown section below with links to the strain report pages.. Full Name: If the strain has a text name then it is displayed here; this is not visible if no name is associated to the strain, as in this example. Ontology ID: The identification number of the strain ontology term assigned by RGD, linked to the term in the ontology browser. In the strain ontology, rat strains are organized in a hierarchical fashion based on the type of strain and the way they were developed.. Also known as: Old symbols and synonyms that were used for the strain. If a strain is renamed to comply ...
Notice This is our old gene family archive which is no longer maintained. Please visit our new gene family pages for up to date family data.
Ensembl is a joint project between EMBL - EBI and the Wellcome Trust Sanger Institute to develop a software system which produces and maintains automatic annotation on selected eukaryotic genomes.. Ensembl receives major funding from the Wellcome Trust. Our acknowledgements page includes a list of additional current and previous funding bodies.. ...
Click on a feature for details. Click or drag in the base position track to zoom in. Click side bars for track options. Drag side bars or labels up or down to reorder tracks. Drag tracks left or right to new position ...
and COPS2 gene details page in the UCSC Genome Browser. Human CSN2 genome location and CSN2 gene details page in the UCSC Genome Browser. Wolf DA, ...
This family contains the genes listed in PMID: 27991561 and 12 additional genes that may not meet the strict criteria laid out in that paper but have either been named for their WD repeat or acknowledged to contain one ...
Click on a feature for details. Click or drag in the base position track to zoom in. Click side bars for track options. Drag side bars or labels up or down to reorder tracks. Drag tracks left or right to new position. Press "?" for keyboard shortcuts ...
Genome databases for Trichomonas vaginalis. Genomic-scale data available via TrichDB may be queried based on BLAST searches, annotation keywords and gene ID searches, GO terms, sequence motifs and other protein characteristics. Functional queries can also be formulated, based on transcript and protein expression data from a variety of platforms. Phylogenetic relationships may also be interrogated.
KEGG (Kyoto Encyclopedia of Genes and Genomes) is a bioinformatics resource for understanding the functions and utilities of cells and organisms from both high‐level and genomic perspectives
Views in Archive EnsEMBL are separated into gene based views and transcript based views according to which level the information is more appropriately associated with. This view is a transcript level view. To flip between the two sets of views you can click on the Gene and Transcript tabs in the menu bar at the top of the page. ...
Views in Archive EnsEMBL are separated into gene based views and transcript based views according to which level the information is more appropriately associated with. This view is a transcript level view. To flip between the two sets of views you can click on the Gene and Transcript tabs in the menu bar at the top of the page. ...
KEGG organisms are assigned 3 letter codes, e.g., hsa for homo sapiens. To map these codes to the NCBI taxonomy ID, a one-liner sed command is sufficient: First download by copy n paste from the KEGG taxonomy page: Save it to a text file kegg_taxonomy.txt Then sed: Download kegg2taxonomy.txt
Upload a list of gene IDs You can upload any file that has a whitespace (returns, tabs, or spaces) separated list of gene IDs. Be sure to view the results of our gene ID mapping to ensure your list was mapped correctly. ...
Upload a list of gene IDs You can upload any file that has a whitespace (returns, tabs, or spaces) separated list of gene IDs. Be sure to view the results of our gene ID mapping to ensure your list was mapped correctly. ...
The data in Mouse Polymorphism DB has been moved to NIG Mouse Genome Database. With this, we are stopping all our services except the Blast search. Thank you for using the Mouse Polymorphism DB till now. We hope that you will continue to support the NIG Mouse Genome Database ...
Today, a novel map of all proteins secreted to human blood is described. The paper by Uhlen et al. entitled "The Human Secretome" is published in the journal Science Signaling and provides a first comprehensive annotation of all proteins secreted by the human cells. In addition, an analysis of the concentrations of the proteins circulating in the human blood is described. This map provides a unique resource to study human biology and diseases, in particular for immune-based research and efforts to develop new, effective treatments in oncology and autoimmune diseases...Read more. ...
Today, a novel map of all proteins secreted to human blood is described. The paper by Uhlen et al. entitled "The Human Secretome" is published in the journal Science Signaling and provides a first comprehensive annotation of all proteins secreted by the human cells. In addition, an analysis of the concentrations of the proteins circulating in the human blood is described. This map provides a unique resource to study human biology and diseases, in particular for immune-based research and efforts to develop new, effective treatments in oncology and autoimmune diseases...Read more. ...
Related human diseases are listed by referencing the following databases: KEGG disease (http://www.genome.jp/kegg/disease/), GeneCards (http://www.genecards.org/), and Online Mendelian Inheritance in Man (http://www.ncbi.nlm.nih.gov/omim ...
The IP Industry Base is a public available database about the global market of IP practitioners. Currently is provides high-quality profiles of more than 4910 companies, 15620 professionals and 4250 places. The service of the IP Industry Base is dedicated to technology managers, IP professionals and IPR academia. The open data of the IP Industry Base aims to create transparency for the market of IP practitioners.
The IP Industry Base is a public available database about the global market of IP practitioners. Currently is provides high-quality profiles of more than 4890 companies, 16130 professionals and 4290 places. The service of the IP Industry Base is dedicated to technology managers, IP professionals and IPR academia. The open data of the IP Industry Base aims to create transparency for the market of IP practitioners.
το κείμενο με τίτλο GPSy: a cross-species gene prioritization system for ... - HAL σχετίζετε με Βιοτεχνολογία
Affects function: The variants effect on the function of the gene/protein, displayed in the format R/C. R is the value reported by the source (publication, submitter) and this classification may vary between records. C is the value concluded by the curator. Note that in some database the curator uses Summary records to give details on the classification of the variant.Values used: + indicating the variant affects function, +? probably affects function, - does not affect function, -? probably does not affect function, ? effect unknown, . effect was not classified ...
错误信息:Unknown storage engine InnoDB Error sql: SELECT * FROM `p_genedb` WHERE (1=1) and Species like %Zea% and Gene_ontology_category = Signal_transducer limit 0, ...
KEGG pathway frequency heatmap. All coding genes annotated against KEGG database and KEGG pathway frequencies were hierarchically clustered in two dimensions. T
Today is National Eggnog Day. Celebrate this tasty beverage and get your eggnog fix this holiday with one of these mouthwatering recipes.
The following is an overview of the steps required to submit an application for the SCAP-T data:. 1. All applications need to be submitted to dbGaP through the dbGaP Authorized Access web page. For instructions on how to request dbGaP data please view the dbGaP Request Procedures (PDF). Please log in using your eRA Commons account (NIH intramural investigators should use their NIH login) and enter your application.. 2. The dbGaP dataset ID for SCAP-T is phs000833.v3.p1. Click here to go to our project website on dbGaP.. © 2015 University of Pennsylvania ...
The following is an overview of the steps required to submit an application for the SCAP-T data:. 1. All applications need to be submitted to dbGaP through the dbGaP Authorized Access web page. For instructions on how to request dbGaP data please view the dbGaP Request Procedures (PDF). Please log in using your eRA Commons account (NIH intramural investigators should use their NIH login) and enter your application.. 2. The dbGaP dataset ID for SCAP-T is phs000833.v3.p1. Click here to go to our project website on dbGaP.. © 2015 University of Pennsylvania ...
Hi everyone, I need a bed file containing starts and ends of the exons, gene name and number of the exon - but just for the canonical transcript - because I dont want to have the regions repeated. I tried UCSC Table browser and BioMart but non of them gives me exactly what I need.. Using UCSC I can get canonical transcripts (but at the same time I couldnt get starts and ends of the exon altogether with the gene name).. Using BioMart I can get starts and ends of the exons altogether with the gene name, but I cant find how to choose the canonical transcripts and thats why the regions are repeated as seen below in the case of NUS1P3:. ...
MAP kinase kinase of the HOG signaling pathway; activated under severe osmotic stress; mitophagy-specific regulator; plays a role in regulating Ty1 transposition ...
The majority of these functions deal with the degradation and modification of RNA. I am struggling to figure out how to differentiate between up-regulated and down-regulated genes based on geneontology website or the data given, but considering that the t15, t30, t60, t90 are up-regulated, while only t-120 is down-regulated, it would probably be reasonable to assume that these functions are mostly up-regulated. This would mean that due to cold-shock, cells primarily increase the breakdown of RNA,and mores specifically non-coding RNA, as suggested by the GO terms. This suggests that cold-shock induces translation in order to produce specific proteins involved in stress response ...
Developmental Anatomic Gene Expression Atlas (AGEA) The Allen Gene Expression Atlas (AGEA) for the Developing Mouse Brain is used to understand how voxels of the brain are related by gene expression (Correlation), and to find genes expressed at a particul
Ensembl Genomes provides genomic variation data, including single nucleotide polymorphisms(SNPs) and insertion-deletion mutations (indels) from various sources, for which any effects on transcripts in the area are calculated. In Ensembl Genomes variant data is imported from EBI resources such as the European Variation Archive (EVA) or the European Nucleotide Archive (ENA) and from a range of third parties. The exact source of variant data is provided on the information page for each genome in the Ensembl browser (e.g. A. thaliana). Ensembl Genomes uses the Ensembl variation platform for data storage and display/dissemination ...
Functional annotation of genomes is a critical aspect of the genomics enterprise. Without reliable assignment of gene function at the appropriate level of specificity, new genome sequences are plainly useless. The primary methodology used for genome annotation is the sequence database search, the results of which allow transfer of functional information from experimentally characterized genes (proteins) to their uncharacterized homologs in newly sequenced genomes [1,2,3]. However, general-purpose, archival sequence databases are not particularly suited for the purpose of genome annotation. The quality of the annotation of a new genome produced using a particular database critically depends on the reliability and completeness of the annotations in the database itself. As far as annotation is concerned, the purpose of primary sequence databases is to faithfully preserve the description attached to each sequence by its submitter. In their capacity as sequence archives, such databases include no ...
Microarray gene expression data sets are jointly analyzed to increase statistical power. They could either be merged together or analyzed by meta-analysis. For a given ensemble of data sets, it cannot be foreseen which of these paradigms, merging or meta-analysis, works better. In this article, three joint analysis methods, Z-score normalization, ComBat and the inverse normal method (meta-analysis) were selected for survival prognosis and risk assessment of breast cancer patients. The methods were applied to eight microarray gene expression data sets, totaling 1324 patients with two clinical endpoints, overall survival and relapse-free survival. The performance derived from the joint analysis methods was evaluated using Cox regression for survival analysis and independent validation used as bias estimation. Overall, Z-score normalization had a better performance than ComBat and meta-analysis. Higher Area Under the Receiver Operating Characteristic curve and hazard ratio were also obtained when ...
There is a large number of biological databases that have become available in the public domain in recent years. According to the latest NAR database edition, there are more than 1600 listed database [1]. This is an under representation of the total number as there are many commercial and private databases. The number and size of private databases are in the rise [2, 3] mainly due to high throughput technologies being used in biological research. These biological databases can be in standard formats like flat files, VCF, XLS, GFF, BED etc [4, 5]. or other user defined formats. Furthermore, some databases are only accessible through an API or via a website (e.g. genecards.org).. Searches on these databases can be categorized as exact searches and exploratory searches. In exact searches user has the complete idea of what he is searching for while in exploratory searches, user only has a vague idea about what he is searching for. An example for the former type of search is a search for information ...
Abstract Background Charting the interactions among genes and among their protein products is essential for understanding biological systems. A flood of interaction data is emerging from high throughput technologies, computational approaches, and literature mining methods. Quick and efficient access to this data has become a critical issue for biologists. Several excellent multi-organism databases for gene and protein interactions are available, yet most of these have understandable difficulty maintaining comprehensive information for any one organism. No single database, for example, includes all available interactions, integrated gene expression data, and comprehensive and searchable gene information for the important model organism, Drosophila melanogaster. Description DroID, the Drosophila Interactions Database, is a comprehensive interactions database designed specifically for Drosophila. DroID houses published physical protein interactions, genetic interactions, and computationally predicted
The licenses for most software are designed to take away your freedom to share and change it. By contrast, the GNU General Public License is intended to guarantee your freedom to share and change free software - to make sure the software is free for all its users. This General Public License applies to most of the Free Software Foundations software and to any other program whose authors commit to using it. (Some other Free Software Foundation software is covered by the GNU Library General Public License instead.) You can apply it to your programs, too.. When we speak of "free" software, we are referring to freedom, not price. Our General Public Licenses are designed to make sure that you have the freedom to distribute copies of free software (and charge for this service if you wish), that you receive source code or can get it if you want it, that you can change the software or use pieces of it in new free programs; and that you know you can do these things.. To protect your rights, we need to ...
Summary: Genoscape is an open-source Cytoscape plug-in that visually integrates gene expression data sets from GenoScript, a transcriptomic database, and KEGG pathways into Cytoscape networks. The generated visualisation highlights gene expression changes and their statistical significance. The plug-in also allows one to browse GenoScript or import transcriptomic data from other sources through tab-separated text files. Genoscape has been successfully used by researchers to investigate the results of gene expression profiling experiments.. Availability: Genoscape is an open-source software freely available from the Genoscape webpage (http://www.pasteur.fr/recherche/unites/Gim/genoscape/). Installation instructions and tutorial can also be found at this URL.. Contact: [email protected]; [email protected] Supplementary information: Supplementary data are available at Bioinformatics online.. ...
Barnes, Michael R. (2003). "Human Genetic Variation: Databases and Concepts". In Barnes, Michael R.; Gray, Ian C. ... SNP-based genetic linkage analysis can be used to map disease loci, and determine disease susceptibility genes in individuals. ... The combination of SNP maps and high density SNP arrays allows SNPs to be used as markers for genetic diseases that have ... SNPs can also be used to study genetic abnormalities in cancer. For example, SNP arrays can be used to study loss of ...
"The Cochrane Database of Systematic Reviews (8): CD009118. doi:10.1002/14651858.CD009118.pub3. PMID 27531591.. ... USDA, ARS, National Genetic Resources Program. "GRIN species records of Senna". Germplasm Resources Information Network-(GRIN ... "International Legume Database & Information Service. Cardiff School of Computer Science & Informatics. Retrieved 6 January 2017 ... "Hawaiian Ethnobotany Online Database. Bernice P. Bishop Museum. Retrieved 2009-03-10.. ...
database of genetic disorders.. *PubMed: {{PMID}}. -an alternative method of linking to PubMed that shows "PubMed" as the link ... Diseases Database: {{DiseasesDB}}. and {{DiseasesDB2}}. *eMedicine: {{eMedicine}}. and {{eMedicine2}}. -clinical overviews of ... Some good sources may be found from TRIP database or here.. *Wikipedia's guidelines explaining the preferred references for ... It offers a free search engine for accessing the MEDLINE database of biomedical research articles offered by the National ...
Manage the national database of criminal's genetic profiles;[5]. *Prevent and process the violation of human rights and civil ...
Geography, Classification, Genetic Resources and Breeding. "Intan", 468p.. External links[edit]. Wikimedia Commons has media ... "International Legume Database & Information Service. Cardiff School of Computer Science & Informatics. Retrieved 11 April 2014. ... USDA, ARS, National Genetic Resources Program. "GRIN species records of Lupinus". Germplasm Resources Information Network-(GRIN ... eds.) Classification of Lupins. In: Lupins: Geography, Classification, Genetic Resources and Breeding. St. Petersburg: Intan. ...
Wikimedia Commons has media related to Genetic promoter regions.. *ORegAnno - Open Regulatory Annotation Database ... Bidirectionally paired genes in the Gene Ontology database shared at least one database-assigned functional category with their ... Some cases of many genetic diseases are associated with variations in promoters or transcription factors. ...
"GRIN) Online Database. USDA, ARS, National Genetic Resources Program. Retrieved 2007-12-27.. ... "The PLANTS Database. USDA, Baton Rouge, LA 70874-4490 USA. Retrieved 2007-12-18.. ...
"Database of Protein, Chemical, and Genetic Interactions , BioGRID". thebiogrid.org. Retrieved 2016-04-25.. ... "HGNC database of human gene names , HUGO Gene Nomenclature Committee". www.genenames.org. Retrieved 2016-04-25.. ... "Cancer Cell Metabolism Database ~~ Bioinformatics and Systems Medicine Laboratory ~~". bioinfo.mc.vanderbilt.edu. Retrieved ... There are several options for commercial diagnostic testing for mutations in POLD1.[130] Genetic testing typically includes ...
Genetic Databases. AccessEdit. SNOMED CT is maintained and distributed by SNOMED International, an international non-profit ...
"Afghan Civilian Casualties Database Appears in Unexpected Place". Science , The Rundown News Blog , PBS NewsHour. PBS. 2011-03- ... I. Genetic and phenotypic bases of wrinkly spreader fitness". Genetics. 161 (1): 33-46. PMC 1462107 . PMID 12019221. " ...
"The LIFEdb database in 2006". Nucleic Acids Research. 34 (Database issue): D415-8. doi:10.1093/nar/gkj139. PMC 1347501 . PMID ... Lu Y, Dollé ME, Imholz S, van 't Slot R, Verschuren WM, Wijmenga C, Feskens EJ, Boer JM (Dec 2008). "Multiple genetic variants ...
Krueger SK, Williams DE (June 2005). "Mammalian flavin-containing monooxygenases: structure/function, genetic polymorphisms and ... "Trimethylaminuria and a human FMO3 mutation database". Human Mutation. 22 (3): 209-13. doi:10.1002/humu.10252. PMID 12938085. ...
Databases: *. Roberts RJ, Vincze T, Posfai, J, Macelis D. "REBASE". Archived from the original on 2016-12-30. Retrieved 2008-06 ... Primrose SB, Old RW (1994). Principles of gene manipulation: an introduction to genetic engineering. Oxford: Blackwell ... 35 (Database issue): D269-70. doi:10.1093/nar/gkl891. PMC 1899104. PMID 17202163.. ... The flexibility and ease of use of these enzymes make them promising for future genetic engineering applications.[43][44] ...
TreeFam: Tree families database. Ruan J, Li H, Chen Z, Coghlan A, Coin LJ, Guo Y, Hériché JK, Hu Y, Kristiansen K, Li R, Liu T ... The pattern of genetic divergence can be used to trace the relatedness of organisms. Two organisms that are very closely ... Databases of orthologous genes[edit]. Given their tremendous importance for biology and bioinformatics, orthologous genes have ... 38 (Database issue): D190-5. doi:10.1093/nar/gkp951. PMC 2808932. PMID 19900971.. ...
... Processor Based Systems for Genetic Sequence Comparison/Database Searching. Cornell University. pp. 62-74.. ... Evolving Cellular Automata with Genetic Algorithms: A Review of Recent Work, Melanie Mitchell, James P. Crutchfeld, Rajarshi ...
"Integrated Taxonomic Information System on-line database. Retrieved 2008-01-29.. *^ Flora of North America. "37. Senecio ... USDA, ARS, National Genetic Resources Program, National Germplasm Resources Laboratory, Beltsville, Maryland. Retrieved 2008-02 ... "Integrated Taxonomic Information System on-line database. Retrieved 2008-02-01.. *^ Integrated Taxonomic Information System ... "UNEP-WCMC Species Database search results Senecio vulgaris L." World Conservation Monitoring Centre (WCMC) Search. United ...
USDA, ARS, National Genetic Resources Program. "GRIN species records of Lupinus". Germplasm Resources Information Network-(GRIN ... "International Legume Database & Information Service. Cardiff School of Computer Science & Informatics. Retrieved 11 April 2014. ... eds.) Classification of Lupins. In: Lupins: Geography, Classification, Genetic Resources and Breeding. St. Petersburg: Intan. ... Online Database]. National Germplasm Resources Laboratory, Beltsville, Maryland. Retrieved 11 April 2014.. CS1 maint: multiple ...
... genetic genealogy and public-records databases." [40] This has led to calls for policy-makers to establish consistent ... Genetic non-discrimination laws have been enacted in some US states[31] and at the federal level, by the Genetic Information ... Genetic privacyEdit. Main article: Genetic privacy. In the United States, biomedical research containing human subjects is ... "Privacy loophole found in genetic databases". Nature. doi:10.1038/nature.2013.12237.. ...
Genetic research published in European Journal of Human Genetics "has revealed that over 70% of males belong to a single ... 2011 census data, based on table 7 Population by ethnicity, gives a total of 621,573 Roma in Romania. This figure is disputed ... Genetic findings in 2012 suggest the Romani originated in northwestern India and migrated as a group.[123][62][143] According ... Genetic findings appear to confirm that the Romani "came from a single group that left northwestern India about 1,500 years ago ...
Databases and other resources[edit]. *TAIR and NASC: curated sources for diverse genetic and molecular biology information, ... Other databases: Protein Data Bank, Ensembl and InterPro. *Specialised genomic databases: BOLD, Saccharomyces Genome Database, ... Databases. *Sequence databases: GenBank, European Nucleotide Archive and DNA Data Bank of Japan. ... Secondary databases: UniProt, database of protein sequences grouping together Swiss-Prot, TrEMBL and Protein Information ...
Systematic Meta-Analyses of Alzheimer's Disease Genetic Association Studies: The AlzGene Database. Nature Genetics, 2007; 39:17 ... Decoding Darkness: The Search for the Genetic Causes of Alzheimer's Disease. Rudolph E. Tanzi and Ann B, Parson, Perseus ... "Decoding darkness : the search for the genetic causes of Alzheimer's disease (Book, 2000)". WorldCat. Retrieved 26 Jun 2015.. ... Tanzi also co-authored the books "Decoding Darkness: The Search the Genetic Causes of Alzheimer's Disease, the New York Times ...
In 2017 researchers were able to access the database including genetic information.[14][15] By 2017 Biobank participants had ... Frank, L. (1999). "GENETIC DISEASE:Storm Brews over Gene Bank of Estonian Population". Science. 286 (5443): 1262-1263. doi: ... From 2012, researchers were able to apply to use the database (though they are not given access to the volunteers, who will ... GeneWatch UK, a pressure group that claims to promote the responsible use of genetic information, asserted that the complexity ...
"Genetic Alliance advocacy". "About CORD". Archived from the original on 25 July 2010. "Halton Community Service Database". ... CORD is committed to increasing access to genetic screening and genetic counseling for all rare disorders. Currently, Durhane ...
"The Reptile Database.. *^ Edwards, Danielle; Benavides, Edgar; Garrick, Ryan (January 2013). "The genetic legacy of Lonesome ... 2012). "Genetic rediscovery of an 'extinct' Galápagos giant tortoise species". Current Biology. 22 (1): R10-1. doi:10.1016/j. ... Today, the remaining tortoises that live around Wolf Volcano have combined genetic markers from several species.[32][33] In May ... This also shows that the number of animals in a species can rise despite genetic variation. ...
A 2015 Cochrane database review found insufficient evidence to justify the use of G. lucidum as a first-line cancer treatment. ... Pawlik, A (2015). "Genetic and Metabolic Intraspecific Biodiversity of Ganoderma lucidum". BioMed Research International. 2015 ... Prior to genetic analyses of fungi, they were classified according to their morphological characteristics. The ITS region of ... Names of a Selection of Asian Fungi, multilingual multi-script plant name database. ...
SzGene database at Schizophrenia Research Forum.. *^ a b Munafò MR, Yalcin B, Willis-Owen SA, Flint J (January 2008). " ... Thapar A, Langley K, Owen MJ, O'Donovan MC (December 2007). "Advances in genetic findings on attention deficit hyperactivity ... "IUPHAR Database of Receptors and Ion Channels. International Union of Basic and Clinical Pharmacology.. ... "The genetic architecture of selection at the human dopamine receptor D4 (DRD4) gene locus". American Journal of Human Genetics ...
"GeoWhen Database". Retrieved March 8, 2011.. *^ a b Encinas, Alfonso; Pérez, Felipe; Nielsen, Sven; Finger, Kenneth L.; ... "New genetic data shows humans and great apes diverged earlier than thought". phys.org. ...
International Plant Genetic Resources Institute. 271 pp. (Gymnosperm Database). Anna Lewington & Edward Parker (1999). Ancient ... Araucaria araucana forest genetic resources in Argentina. Pages 105-132 in Barbara Vinceti, Weber Amaral and Brien Meilleur ( ... Listed as Vulnerable (VU B1+2c v2.3) "Gymnosperm Database: Araucaria araucana". Conifers.org. "Araucaria araucana". ... eds). Challenges in managing forest genetic resources for livelihoods: examples from Argentina and Brazil. ...
... Startup aims to identify disease modifying genes in people ...
Genetic info database. What are my chances?. (+2, -1) [vote for,. against] ... In the genetic info database, I add the fact that I have DPD deficiency. The program knows the inheritance pattern of DPD ... There exist large databases in which one can trace geneology. Suppose I receive fluorouracil and almost die, and it is proven ... If she is tested and found not to be DPD deficient, she can add this information to the database under her own name. The risk ...
The big news back in the day was sequencing the human genome. It was a long, laborious process, and the resulting document was hardly a page-turner, but it meant that if someone had the right technology they could reconstruct human DNA from scratch. They could build a human. Now they can build a whole lot of things....
An international database charting gene changes means families previously in the dark about their genetic risk can be offered ... Australian researchers hope database will illuminate genetic risk. Rachael Brown reported this story on Monday, December 23, ... RACHAEL BROWN: Professor Macrae says the database could have wider implications for other rare genetic diseases.. FINLAY MACRAE ... JENNY JENKINS: We were a very fortunate family in that we were one of the first to be able to make use of genetic testing and ...
OMIM Turns 50: A Genetic Databases Past, Present, and Future By Christy Brownlee ... OMIM Turns 50: A Genetic Databases Past, Present, and Future .related-content { clear:both; } p.related-pubs-title { text- ... David Valle is director of the McKusick-Nathans Institute of Genetic Medicine. He works to discover the genetic causes of ... molecular pathway and variant databases, gene-testing registries, clinical trial databases and more. ...
It is a race to acquire genetic knowledge and success is dependent on collaborations and expertise from researchers... ... The database is used primarily by researchers, pathologists, geneticists, genetic counselors and medical oncologists. The ... The BRCA database is among ten other free, open-source databases -focused on inherited diseases-that ARUP provides to the ... Behind the Scenes of Breast Cancer, Researchers Collect Genetic Clues in BRCA Database. ...
... which researchers can use to find genetic codes that determine whos at risk of developing genetic health problems and help ... Intermountain Healthcare building new global DNA database for future genetic discoveries. Intermountain Medical Center ... "Well be able to use the information people submit to validate new genetic and disease findings, discover new genetic mutation ... which researchers can use to find genetic codes that determine whos at risk of developing genetic health problems and help ...
In so many words, the aim is to create a massive database for the greater good. Currently, 23andMes database has genetic ... Of course, such a database raises privacy concerns.. Would you offer your genetic information for such a cause? (Update: ... Seeking Parkinsons cure, Google co-founder Sergey Brin, 23andMe build searchable genetic database. Google co-founder Sergey ...
The goal is to make Alzheimers disease-relevant genetic data available to as many investigators as possible to accelerate ... Largest genetic database on Alzheimers disease now re-open for business. University of Pennsylvania School of Medicine ... "Genetic findings for Alzheimers disease are critical for identifying targets for therapeutic development," Wang said. "Making ... The goal is to make Alzheimers disease-relevant genetic data available to as many investigators as possible to accelerate ...
FDA Approves NIH-Funded Genetic Database, Issues Draft Guidance on NASH. Published: Dec 05, 2018 By Mark Terry ... The database is the Clinical Genome Resource (ClinGen) consortiums ClinGen Expert Curated Human Genetic Data, funded by the ... The FDA also formally recognized a public database that contains data about genes, genetic variants and how they relate to ... In the past, many companies preferred to use their own databases and utilize it as proprietary information. There are also ...
... a request mostly accesses a subset of the entire database. It is, therefore, natural to organize commonl ... In a typical distributed/parallel database system, ...
... annotating and integrating of information in different kinds of genomic databases. The use of genetic databases has come to the ... Genetic databases provide new dimensions and new niches to examine the ethics of different traditions of research and to ... As genetic research has moved from Mendelian genetics to sequence maps to the study of human genetic variation at the level of ... The publics expectations of genetic databases and biobanks and how they might shape future choices for individuals and ...
GeneSeeker: extraction and integration of human disease-related information from web-based genetic databases.. van Driel MA1, ... All database searches are performed via the web interfaces provided with the original databases, guaranteeing that the most ... GeneSeeker: extraction and integration of human disease-related information from web-based genetic databases ... GeneSeeker: extraction and integration of human disease-related information from web-based genetic databases ...
Genetic codes is a simple ASN.1 database hosted by the National Center for Biotechnology Information and listing all the known ... Genetic code Galperin, Michael Y; Cochrane Guy R (Jan 2011). "The 2011 Nucleic Acids Research Database Issue and the online ... Molecular Biology Database Collection". Nucleic Acids Res. England. 39 (Database issue): D1-6. doi:10.1093/nar/gkq1243. PMC ...
Ethical Issues of Human Genetic Databases: A Challenge to Classical Health Research Ethics? By Elger Bernice, Farnham: Ashgate ...
Indian Genetic Disease Database (IGDD) is the first patient based "genetic disease" database of India. It is being developed ... This database keeps track of mutations in the causal genes for that genetic diseases common in India. The database will be ... 39 (Database issue): D933-8. doi:10.1093/nar/gkq1025. PMC 3013653 . PMID 21037256. Indian Genetic Disease Database Website ... The database had been launched and updated on August 2010. From this database one can obtain patient based data with respect to ...
Home News National Jewish Health Accesses InterMunes Idiopathic Pulmonary Fibrosis DNA Database ... National Jewish Health Accesses InterMunes Idiopathic Pulmonary Fibrosis DNA Database. September 17, 2009. 0 ... InterMune will collaborate with National Jewish Health investigators to help further the research of inherited genetic factors ... The database includes DNA from approximately 1,500 IPF patients. ... GEN - Genetic Engineering and Biotechnology News Mary Ann ...
... problems and suggests a framework for integrating molecular biology databases. It suggests a component datab ...
Researchers worldwide will now have access to genetic data linked to medical information on a diverse group of more than 78,000 ... Kaiser Permanente and UCSF Add Substantial Genetic, Health Information to NIH Online Database. Information is Largest-Ever ... Home > UCSF News Center > Kaiser Permanente and UCSF Add Substantial Genetic, Health Information to NIH Online Database ... The genetic information on more than 78,000 individuals translates into over 55 billion bits of genetic data for the cohort. ...
LongevityMap: Genetic association studies of longevity. Welcome to the LongevityMap, a database of human genetic variants ... A curated database of genes associated with dietary restriction in model organisms either from genetic manipulation experiments ... If you find an error or wish to propose a study or variant to be included in the database, please contact us. To receive the ... A curated database of candidate human ageing-related genes and genes associated with longevity and/or ageing in model organisms ...
Database,of,Genetic,,Clinical,Research,medicine,medical news today,latest medical news,medical newsletters,current medical news ... U.S. Unveils Database of Genetic, Clinical Research. ...Goal is to advance understanding of ills such as heart disease ... ... 14 (HealthDay News) -- One of the largest collections of genetic and clinical data available free to researchers worldwide has ... SHARe is accessed through the database of Genotypes and Phenotypes (dbGaP), a Web-based resource for archiving and distributing ...
Maintaining Genetic Diversity Under the Endangered Species Act. EPA Grant Number: F6E11028. Title: Maintaining Genetic ... Endangered Species Act, ESA, salmonids, genetic markers, neutral variation, adaptive variation, conservation, biodiversity,, ... It will elucidate the genetic underpinnings that determine if a given population can be protected under the Act. This work ... enumerating the state of the art in the use of genetic data under the Act. This will also involve a review of the literature on ...
Genetic polymorphisms and mechanisms of neurotoxicity: overview. NEUROTOXICOLOGY Tiffany-Castiglioni E, Venkratraj V, Qian Y ... Understanding the significance of genetic variability in the human PON1 gene. None Furlong CE, Li W-F, Cole TB, Jampsa R, ... Genetic Susceptibility to Pesticides. Grant Number R831709C002 RFA: Centers for Childrens Environmental Health and Disease ... Role of paraoxonase (PON1) status in pesticide sensitivity: genetic and temporal determinants. NEUROTOXICOLOGY Furlong CE, Cole ...
We applied the technique of the genetic algorithms and a local methodology integrating the Gauss-Newton and Conjugate Gradient ... Magnetotelluric inversion of one- and two-dimensional synthetic data based on hybrid genetic algorithms. ... Goldberg DE (1989) Genetic algorithms in search, optimization and machine learning. Addison-Wesley, New York, p 403Google ... Ferreira NR, Porsani MJ, Oliveira SP (2003) A hybrid genetic-linear algorithm for 2D inversion of sets of vertical electrical ...
Our Current Index Contains 1,728,498 Raw Protein And Genetic Interactions From Major Model Organism Species. ... Our current index is version 3.5.175 and searches 70,208 publications for 1,728,498 protein and genetic interactions, 28,093 ... This BioGRID project page is designed to allow exploration of the entire yeast kinome and its interactions, including genetic ... Searching or double-clicking on text terms retrieves gene function annotation, GO terms, external database links, and ...
  • FINLAY MACRAE: We're leading the field across all 26,000 genes across the genome, in terms of a process by which we can handle this question of interpreting genetic changes. (abc.net.au)
  • RACHAEL BROWN: He says it could help with the interpretation of genetic changes that occur in familial breast cancer, BRCA genes, and in inheritable neurological conditions and blood diseases. (abc.net.au)
  • May 2017-When Online Mendelian Inheritance in Man (OMIM) was first published in 1966, its catalog of human genes, genetic disorders and traits looked a little different than it does now. (hopkinsmedicine.org)
  • ARUP Laboratories, University of Utah (U of U), and the U of U Huntsman Cancer Institute are spearheading this effort in Utah with the creation of the open-source BRCA1 and BRCA2 database-named after the two genes identified and linked to hereditary breast cancer. (cnbc.com)
  • In total, the database contains all of the approximately 2500 variants that have been publicly reported in the BRCA genes. (cnbc.com)
  • A person's DNA is made up of more than 3 billion individual pairs of genetic codes, but finding specific genes that contribute to health problems isn't easy. (eurekalert.org)
  • The FDA also formally recognized a public database that contains data about genes, genetic variants and how they relate to disease. (biospace.com)
  • The identification of genes underlying human genetic disorders requires the combination of data related to cytogenetic localization, phenotypes and expression patterns, to generate a list of candidate genes. (nih.gov)
  • This database keeps track of mutations in the causal genes for that genetic diseases common in India. (wikipedia.org)
  • The data come from one of the nation's largest and most diverse genomics projects - the Genetic Epidemiology Research on Adult Health and Aging (GERA) cohort - which was developed collaboratively by the Kaiser Permanente Research Program on Genes, Environment and Health (RPGEH) and UC San Francisco (UCSF). (ucsf.edu)
  • A curated database of candidate human ageing-related genes and genes associated with longevity and/or ageing in model organisms. (senescence.info)
  • A curated database of genes associated with dietary restriction in model organisms either from genetic manipulation experiments or gene expression profiling. (senescence.info)
  • Database of human genes associated with cellular senescence. (senescence.info)
  • SHARe is accessed through the database of Genotypes and Phenotypes (dbGaP), a Web-based resource for archiving and distributing data from genome-wide association studies that examine the associations between genes and traits such as weight, cholesterol levels, or the presence/absence of disease. (bio-medicine.org)
  • Efforts to identify susceptibility genes involved in complex traits such as cancer, diabetes, hypertension, or Alzheimer's disease are complicated by genetic heterogeneity, incompplete penetrance, phenocopies, and the later age of onset of disease (thus unavailable DNA samples for parents of affected individuals). (biomedcentral.com)
  • GeneLink was initially developed to facilitate our studies of genetic susceptibility to prostate cancer, whose aims are to identify novel high- and moderate- penetrance genes involved in hereditary prostate cancer risk. (biomedcentral.com)
  • With this genetic database, we identified the most impacted genes, toxicity pathways, and biological functions in mahi-mahi after Deepwater Horizon oil exposure," said Schlenk and Xu. (gulfresearchinitiative.org)
  • For example what genetic changes are common to a large number of men with advanced prostate cancer, or what genes are most likely to be turned on or off in advanced prostate cancer? (prostatecanceruk.org)
  • In order to utilize the diversity held in NARS (National Agricultural Research Station) and CGIAR (Consultative Group on International Agricultural Research) germplasm collections, one of the GCP's (Generation Challenge Program) premier capacity building activities is to build databases that contain traditional and molecular data on germplasm so that scientists all over the world can access information with relevance to their region on traits, genes, and sequences. (www.gov.uk)
  • Integrating drug database information with the specific GECNs of HeLa cells could lead to identification of multiple drugs for cervical cancer treatment with minimal side-effects on the genes in the common core. (figshare.com)
  • The database is being updated and the mutation listings for some genes may be incomplete. (euro-wabb.org)
  • Databases devoted to knowledge about specific genes and gene products. (uams.edu)
  • Genetic engineering is faster than traditional selective breeding, and can give more precise outcomes because it allows individual genes or small groups of genes to be manipulated. (scidev.net)
  • Researchers are abandoning the concept of a list of genes sequenced from a single individual, instead aiming for a way to describe all the genetic variation within a species. (the-scientist.com)
  • But it may be a less ideal strategy for other blood diseases and various genetic diseases where large genes or regions of the genome are deleted. (theconversation.com)
  • By following the links below, you can access multiple internal and external databases full of information on variants in genes associated with hereditary cancer. (utah.edu)
  • Recently, Huntsman Cancer Institute and University of Utah researchers Sean Tavtigian and David Goldgar were involved in a global project to compile as much data as possible on variants of two genes called BRCA1 and BRCA2 into a single database called the BRCA Exchange. (vlcmtech.com)
  • Many people-women and men alike-are tested for genetic abnormalities in these genes. (vlcmtech.com)
  • With more than 30 years of expertise in anti-aging genetics, this acquisition enables us to mine the database for vital aging-related genes. (nuskin.com)
  • While many hundreds of genetic mutations each increase an individual's risk by a small amount, faults in two particular genes - BRCA1 and BRCA2 - are known to greatly elevate the risk of breast and ovarian cancers. (cam.ac.uk)
  • And they scan about 500,000 of each person's single-nucleotide polymorphisms, or SNPs (said "snips")-single-letter blips in the genetic code. (bcr.org)
  • Single nucleotide polymorphisms (SNPs) are the most common genetic variations in the human genome. (aacrjournals.org)
  • We tested whether genetic risk scores (GRS) of lipid-associated single nucleotide polymorphisms associate with fasting serum lipid traits and whether the effects are modulated by lifestyle factors or estimates of metabolic health. (forskningsdatabasen.dk)
  • Conclusions-Our findings suggest that individuals who are obese may be more susceptible to the cumulative genetic burden of triglyceride single nucleotide polymorphisms. (forskningsdatabasen.dk)
  • Understanding the significance of genetic variability in the human PON1 gene. (epa.gov)
  • Genetic variability in populations of black pearl oyster Pinctada margaritifera (Mollusc, Bivalve) from Polynesia. (reefbase.org)
  • For the individual patient, the tests used today don't give enough information, which means that if we're to provide real personalized drug treatment we need to characterise the entire genetic variability of the patient," says Magnus Ingelman-Sundberg , Professor of Molecular Toxicology and Principal Investigator at Karolinska Institutet's Department of Physiology and Pharmacology . (ki.se)
  • The present study is the first to compare the genetic variability of SCNT-derived cells to that of IVF ESCs, showing that the somatic-to-stem-cell conversion results in the acquisition of these aberrations and is not somehow secondary to this process. (the-scientist.com)
  • Genetic variability of drought-avoidance root traits in the mini-core germplasm collection of chickpea (Cicer arietinum L. (springer.com)
  • Genetic variability for the root traits was investigated using a cylinder culture system during two consecutive growth seasons in the mini-core germplasm collection of ICRISAT plus several wild relatives of chickpea. (springer.com)
  • The largest genetic variability was observed at 35 days after sowing for root length density (RLD) (heritability, h 2 = 0.51 and 0.54) across seasons, and followed by the ratio of plant dry weight to root length density with h 2 of 0.37 and 0.50 for first and second season, respectively. (springer.com)
  • The information on the genetic variability of chickpea root traits provides valuable baseline knowledge for further progress on the selection and breeding for drought avoidance root traits in chickpea. (springer.com)
  • To populate the registry, they're asking adults who've already purchased direct-to-consumer DNA testing at commercial sites like AncestryDNA, MyHeritage, or 23andMe to voluntarily upload their raw and unprocessed genetic results, or genotypes. (eurekalert.org)
  • SHARe represents a major milestone in moving toward an era of personalized health care -- a future in which the ways we prevent, diagnose and treat health problems are tailored to an individual's genetic makeup," U.S. Health and Human Services Secretary Mike Leavitt said in a prepared statement. (bio-medicine.org)
  • And while doctors do not yet routinely prescribe medications based on a read-out of an individual's genetic frailties, the summer of 2007 saw a great leap forward. (bcr.org)
  • Currently, these large datasets are not available through other sites, including the previously used repository called the database of Genotypes and Phenotypes (dbGaP), which no longer accepts certain large sequence files. (eurekalert.org)
  • Last week, a Florida detective announced at a police convention that he had obtained a warrant to penetrate GEDmatch, a consumer DNA site, and search its full database of nearly 1 million users. (floridabar.org)
  • In July, the detective asked a judge in the Ninth Judicial Circuit Court of Florida to approve a warrant that would let him override the privacy settings of GEDmatch's users and search the site's full database of 1.2 million users to try and solve a case of a serial rapist. (floridabar.org)
  • Analyses using the AnAge database to study the evolution of longevity and ageing in vertebrate lineages. (senescence.info)
  • Further, they stated that these genetic sequencing analyses would benefit from longitudinal studies with clinical follow-up to determine the pathogenicity of rare variants identified through exome sequencing. (renalandurologynews.com)
  • This review briefly introduces the background and main features of both databases and provides an overview of the currently most compelling genetic findings in ALS derived from analyses using these resources. (mpg.de)
  • It turns out that if you feed into [BigQuery] genetic variant calls from a cohort of patients, you can do queries against that, and in a matter of seconds, you can ask questions about allelic frequency, genome-wide association, linkage to phenotypic traits or drug treatments in a way that's just kind of mind-blowingly fast. (bio-itworld.com)
  • To identify new genetic regulators of cellular aging and senescence, we performed genome-wide comparative RNA profiling with selected human cellular model systems, reflecting replicative senescence, stress-induced premature senescence, and distinct other forms of cellular aging. (isharonline.org)
  • Ethical Issues of Human Genetic Databases: A Challenge to Classical Health Research Ethics? (cambridge.org)
  • InterMune will collaborate with National Jewish Health investigators to help further the research of inherited genetic factors that may play a role in idiopathic pulmonary fibrosis (IPF). (genengnews.com)
  • In a continuation of a 2014 conference that explored regulatory considerations and strategies for next-generation sequencing, the Friends of Cancer Research, with support from Alexandria Real Estate Equities, Inc, Pasadena, California, met to discuss the issues and problems of coordinating drug and diagnostic development, specifically the use of curated databases. (ascopost.com)
  • Over the last few years, linguists and computaional linguists have started looking into the possibilities of using multilingual corpora (mainly parallel corpora) for typological and genetic linguistic research. (gu.se)
  • An initiative from GenomeAsia 100K hopes to increase the number of South Asians in genetic research, according to NBC News. (genomeweb.com)
  • If you have questions on genetic variant research, please contact [email protected] . (utah.edu)
  • Owing to recent advances in high-throughput genotyping and sequencing technologies, genetic research in both fields is evolving at a rapidly increasing pace making it more and more difficult to follow and evaluate the most significant progress in the field. (mpg.de)
  • To alleviate this problem, our groups have created dedicated and freely available online databases, ALSoD ( http://alsod.iop.kcl.ac.uk/ ) and ALSGene ( http://www.alsgene.org ), which provide systematic and in-depth qualitative and quantitative overviews of genetic research in both familial and sporadic ALS. (mpg.de)
  • As DNA forensic profiling and databasing become established as key technologies in the toolbox of the forensic sciences, their expanding use raises important issues that promise to touch everyone's lives. (nhbs.com)
  • Staff and the students will be trained in the techniques required in genetic forensic analysis, chain of evidence, producing forensic profiles, analysis and writing evidence statements for the authorities. (sheffield.ac.uk)
  • Open source means the databases are open to others but also open to collaboration, so medical scientists from around the world can submit findings that are then curated to confirm credibility of findings. (cnbc.com)
  • Many public databases are not curated to be useful for clinical use," points out Kusukawa. (cnbc.com)
  • This information will be built into a huge database, which can then be used to help work out which patients would be most suitable for which type of treatment or clinical trial, based on the genetic information contained in their particular cancer. (prostatecanceruk.org)
  • Genetic testing for familial hypercholesterolemia is becoming both more widely available and cheaper, spurring conversations about its clinical utility. (cdc.gov)
  • Familial hypercholesterolemia epitomizes the goal of precision medicine to define a subset of individuals with a high risk of morbidity and mortality through genetic diagnosis to manage and treat the risk accordingly. (cdc.gov)
  • Genetic cascade screening can be used to identify familial hypercholesterolemia patients at a younger age and start timely treatment to prevent CHD. (cdc.gov)
  • As genotype and phenotype correlations in familial hypercholesterolemia become increasingly understood, this information will likely play a more important role in diagnosis and treatment especially as the cost of genetic testing continues to decline. (cdc.gov)
  • Cascade genetic screening for familial hypercholesterolemia. (cdc.gov)
  • explains ARUP's Tina Brunson, who is trained as a genetic counselor. (cnbc.com)
  • Any person employed as or practicing as a Genetic Counselor in California, or providing genetic counseling to residents of California, is required to have a valid Genetic Counselor License or a Temporary Genetic Counselor License issued by the State of California. (ca.gov)
  • This database was used to produce the book Fungi on Plants and Plant Products in the United States ( APS Press, St. Paul, Minnesota, 1989). (usda.gov)
  • An international database charting gene changes means families previously in the dark about their genetic risk can be offered definitive testing. (abc.net.au)
  • CONCLUSIONS: These results indicate that a relatively small subset of schizophrenia genetic risk variants is related to the (normal) development of white matter. (forskningsdatabasen.dk)
  • And some aren't classically genetic-a person can have the risk allele and not develop the condition, while people lacking the risk allele do get sick. (bcr.org)
  • Given the broad reach of the four strands associated with the Databases project, the methodology involved an array of techniques. (genomicsnetwork.ac.uk)
  • The database now contains about 300 BRCA1 and BRCA2 variants, originally reported as VUS, which have now been clinically classified using an algorithm developed as a result of international collaborations. (cnbc.com)
  • The database also contains Tute scores and Tute predictions, the company's own scoring system to predict whether a SNP or indel is likely to be associated with Mendelian phenotypes. (bio-itworld.com)
  • When testing a gene, many different types of genetic changes are identified. (utah.edu)
  • The two most common types of genetic genealogy tests are Y-DNA (paternal line) and mtDNA (maternal line) genealogical DNA tests . (wikidoc.org)
  • Abstract: Parallel database machine architectures have evolved from the use of exotic hardware to a software parallel dataflow architecture based on conventional shared-nothing hardware. (psu.edu)
  • Genetic genealogy involves the use of genealogical DNA testing to determine the level of genetic relationship between individuals. (wikidoc.org)
  • In the wake of that book's success, and the growing availability and affordability of genealogical DNA tests, genetic genealogy as a field began growing rapidly. (wikidoc.org)
  • Another milestone in the acceptance of genetic genealogy is the Genographic Project . (wikidoc.org)
  • Not all the genetic genealogy testing companies provide information about shared segments. (familytreemagazine.com)
  • For more on tools available at GEDmatch and other third-party sites, check out The Family Tree Guide to DNA Testing and Genetic Genealogy , available in both print and e-book versions at Family Tree Shop. (familytreemagazine.com)
  • For further details, refer to Directive 96/9/EC of the European Parliament and the Council of March 11 (1996) on the legal protection of databases. (lumc.nl)
  • consequently, the authors could not extract all variables necessary for a thorough assessment of phenotypic agreement compared to the genetic diagnoses through exome sequencing. (renalandurologynews.com)
  • It offers the opportunity to identify potential genetic risks and influences on a broad range of health conditions, particularly those related to aging. (ucsf.edu)
  • Genetic influences on the circulating cytokines involved in osteoclastogenesis. (cngb.org)
  • People assumed that GM organisms were inherently more harmful than earlier genetic manipulations through conventional crop or livestock breeding, or by the march of nature. (scidev.net)
  • As well as being of benefit to individual patients, the database will be useful when it comes to designing new prostate cancer drugs. (prostatecanceruk.org)
  • Porsani MJ, Stoffa PL, Sen MK, Chunduru R, Wood WT (1993) A combined genetic and linear inversion algorithm for seismic waveform inversion. (springer.com)
  • Please use the links below to access the LOVD database for the gene of interest. (euro-wabb.org)
  • The contents of this LOVD database are the intellectual property of the respective curator(s). (lumc.nl)