Base sequence. Medical search

The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.

Pairing of purine and pyrimidine bases by HYDROGEN BONDING in double-stranded DNA or RNA.

The spatial arrangement of the atoms of a nucleic acid or polynucleotide that results in its characteristic 3-dimensional shape.

A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).

The relative amounts of the PURINES and PYRIMIDINES in a nucleic acid.

Disruption of the secondary structure of nucleic acids by heat, extreme pH or chemical treatment. Double strand DNA is "melted" by dissociation of the non-covalent hydrogen bonds and hydrophobic interactions. Denatured DNA appears to be a single-stranded flexible structure. The effects of denaturation on RNA are similar though less pronounced and largely reversible.

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.

The reformation of all, or part of, the native conformation of a nucleic acid molecule after the molecule has undergone denaturation.

Polymers made up of a few (2-20) nucleotides. In molecular genetics, they refer to a short sequence synthesized to match a region where a mutation is known to occur, and then used as a probe (OLIGONUCLEOTIDE PROBES). (Dorland, 28th ed)

Widely used technique which exploits the ability of complementary sequences in single-stranded DNAs or RNAs to pair with each other to form a double helix. Hybridization can take place between two complimentary DNA sequences, between a single-stranded DNA and a complementary RNA, or between two RNA sequences. The technique is used to detect and isolate specific sequences, measure homology, or define other characteristics of one or both strands. (Kendrew, Encyclopedia of Molecular Biology, 1994, p503)

A group of deoxyribonucleotides (up to 12) in which the phosphate residues of each deoxyribonucleotide act as bridges in forming diester linkages between the deoxyribose moieties.

A group of 13 or more deoxyribonucleotides in which the phosphate residues of each deoxyribonucleotide act as bridges in forming diester linkages between the deoxyribose moieties.

A highly fluorescent anti-infective dye used clinically as a topical antiseptic and experimentally as a mutagen, due to its interaction with DNA. It is also used as an intracellular pH indicator.

Deoxyribonucleic acid that makes up the genetic material of viruses.

Deoxyribonucleic acid that makes up the genetic material of bacteria.

Constituent of the 40S subunit of eukaryotic ribosomes. 18S rRNA is involved in the initiation of polypeptide synthesis in eukaryotes.

A species of gram-negative, facultatively anaerobic, rod-shaped bacteria (GRAM-NEGATIVE FACULTATIVELY ANAEROBIC RODS) commonly found in the lower part of the intestine of warm-blooded animals. It is usually nonpathogenic, but some strains are known to produce DIARRHEA and pyogenic infections. Pathogenic strains (virotypes) are classified by their specific pathogenic mechanisms such as toxins (ENTEROTOXIGENIC ESCHERICHIA COLI), etc.

Polydeoxyribonucleotides made up of deoxyadenine nucleotides and thymine nucleotides. Present in DNA preparations isolated from crab species. Synthetic preparations have been used extensively in the study of DNA.

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.

The most abundant form of RNA. Together with proteins, it forms the ribosomes, playing a structural role and also a role in ribosomal binding of mRNA and tRNAs. Individual chains are conventionally designated by their sedimentation coefficients. In eukaryotes, four large chains exist, synthesized in the nucleolus and constituting about 50% of the ribosome. (Dorland, 28th ed)

The inferior region of the skull consisting of an internal (cerebral), and an external (basilar) surface.

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.

Any of the covalently closed DNA molecules found in bacteria, many viruses, mitochondria, plastids, and plasmids. Small, polydisperse circular DNA's have also been observed in a number of eukaryotic organisms and are suggested to have homology with chromosomal DNA and the capacity to be inserted into, and excised from, chromosomal DNA. It is a fragment of DNA formed by a process of looping out and deletion, containing a constant region of the mu heavy chain and the 3'-part of the mu switch region. Circular DNA is a normal product of rearrangement among gene segments encoding the variable regions of immunoglobulin light and heavy chains, as well as the T-cell receptor. (Riger et al., Glossary of Genetics, 5th ed & Segen, Dictionary of Modern Medicine, 1992)

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.

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.

A genus of ascomycetous fungi of the family Saccharomycetaceae, order SACCHAROMYCETALES.

Condensation products of aromatic amines and aldehydes forming azomethines substituted on the N atom, containing the general formula R-N:CHR. (From Grant & Hackh's Chemical Dictionary, 5th ed)

Agents that are capable of inserting themselves between the successive bases in DNA, thus kinking, uncoiling or otherwise deforming it and therefore preventing its proper functioning. They are used in the study of DNA.

Extrachromosomal, usually CIRCULAR DNA molecules that are self-replicating and transferable from one organism to another. They are found in a variety of bacterial, archaeal, fungal, algal, and plant species. They are used in GENETIC ENGINEERING as CLONING VECTORS.

Models used experimentally or theoretically to study molecular shape, electronic properties, or interactions; includes analogous molecules, computer-generated graphics, and mechanical structures.

A polynucleotide consisting essentially of chains with a repeating backbone of phosphate and ribose units to which nitrogenous bases are attached. RNA is unique among biological macromolecules in that it can encode genetic information, serve as an abundant structural component of cells, and also possesses catalytic activity. (Rieger et al., Glossary of Genetics: Classical and Molecular, 5th ed)

A purine base and a fundamental unit of ADENINE NUCLEOTIDES.

An order of fungi in the phylum Ascomycota that multiply by budding. They include the telomorphic ascomycetous yeasts which are found in a very wide range of habitats.

Enzymes that are part of the restriction-modification systems. They catalyze the endonucleolytic cleavage of DNA sequences which lack the species-specific methylation pattern in the host cell's DNA. Cleavage yields random or specific double-stranded fragments with terminal 5'-phosphates. The function of restriction enzymes is to destroy any foreign DNA that invades the host cell. Most have been studied in bacterial systems, but a few have been found in eukaryotic organisms. They are also used as tools for the systematic dissection and mapping of chromosomes, in the determination of base sequences of DNAs, and have made it possible to splice and recombine genes from one organism into the genome of another. EC 3.21.1.

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.

Sequences of DNA or RNA that occur in multiple copies. There are several types: INTERSPERSED REPETITIVE SEQUENCES are copies of transposable elements (DNA TRANSPOSABLE ELEMENTS or RETROELEMENTS) dispersed throughout the genome. TERMINAL REPEAT SEQUENCES flank both ends of another sequence, for example, the long terminal repeats (LTRs) on RETROVIRUSES. Variations may be direct repeats, those occurring in the same direction, or inverted repeats, those opposite to each other in direction. TANDEM REPEAT SEQUENCES are copies which lie adjacent to each other, direct or inverted (INVERTED REPEAT SEQUENCES).

Ribonucleic acid that makes up the genetic material of viruses.

The biosynthesis of RNA carried out on a template of DNA. The biosynthesis of DNA from an RNA template is called REVERSE TRANSCRIPTION.

A single chain of deoxyribonucleotides that occurs in some bacteria and viruses. It usually exists as a covalently closed circle.

A purine or pyrimidine base bonded to a DEOXYRIBOSE containing a bond to a phosphate group.

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.

A rigorously mathematical analysis of energy relationships (heat, work, temperature, and equilibrium). It describes systems whose states are determined by thermal parameters, such as temperature, in addition to mechanical and electromagnetic parameters. (From Hawley's Condensed Chemical Dictionary, 12th ed)

A group of adenine ribonucleotides in which the phosphate residues of each adenine ribonucleotide act as bridges in forming diester linkages between the ribose moieties.

Viruses whose host is Escherichia coli.

RNA sequences that serve as templates for protein synthesis. Bacterial mRNAs are generally primary transcripts in that they do not require post-transcriptional processing. Eukaryotic mRNA is synthesized in the nucleus and must be exported to the cytoplasm for translation. Most eukaryotic mRNAs have a sequence of polyadenylic acid at the 3' end, referred to as the poly(A) tail. The function of this tail is not known for certain, but it may play a role in the export of mature mRNA from the nucleus as well as in helping stabilize some mRNA molecules by retarding their degradation in the cytoplasm.

The rate dynamics in chemical or physical systems.

A group of ribonucleotides (up to 12) in which the phosphate residues of each ribonucleotide act as bridges in forming diester linkages between the ribose moieties.

The genetic process of crossbreeding between genetically dissimilar parents to produce a hybrid.

The property of objects that determines the direction of heat flow when they are placed in direct thermal contact. The temperature is the energy of microscopic motions (vibrational and translational) of the particles of atoms.

A basic science concerned with the composition, structure, and properties of matter; and the reactions that occur between substances and the associated energy exchange.

The functional hereditary units of BACTERIA.

Ribonucleic acid in bacteria having regulatory and catalytic roles as well as involvement in protein synthesis.

The composition, conformation, and properties of atoms and molecules, and their reaction and interaction processes.

The monomeric units from which DNA or RNA polymers are constructed. They consist of a purine or pyrimidine base, a pentose sugar, and a phosphate group. (From King & Stansfield, A Dictionary of Genetics, 4th ed)

Ribonucleic acid in fungi having regulatory and catalytic roles as well as involvement in protein synthesis.

The parts of a macromolecule that directly participate in its specific combination with another molecule.

The functional hereditary units of VIRUSES.

Use of restriction endonucleases to analyze and generate a physical map of genomes, genes, or other segments of DNA.

Presence of warmth or heat or a temperature notably higher than an accustomed norm.

Change brought about to an organisms genetic composition by unidirectional transfer (TRANSFECTION; TRANSDUCTION, GENETIC; CONJUGATION, GENETIC, etc.) and incorporation of foreign DNA into prokaryotic or eukaryotic cells by recombination of part or all of that DNA into the cell's genome.

Spectroscopic method of measuring the magnetic moment of elementary particles such as atomic nuclei, protons or electrons. It is employed in clinical applications such as NMR Tomography (MAGNETIC RESONANCE IMAGING).

Macromolecular molds for the synthesis of complementary macromolecules, as in DNA REPLICATION; GENETIC TRANSCRIPTION of DNA to RNA, and GENETIC TRANSLATION of RNA into POLYPEPTIDES.

The sum of the weight of all the atoms in a molecule.

Separation of particles according to density by employing a gradient of varying densities. At equilibrium each particle settles in the gradient at a point equal to its density. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)

Biologically active DNA which has been formed by the in vitro joining of segments of DNA from different sources. It includes the recombination joint or edge of a heteroduplex region where two recombining DNA molecules are connected.

Enzymes that catalyze the hydrolysis of ester bonds within RNA. EC 3.1.-.

Enzymes that catalyze the hydrolysis of the internal bonds and thereby the formation of polynucleotides or oligonucleotides from ribo- or deoxyribonucleotide chains. EC 3.1.-.

The relationships of groups of organisms as reflected by their genetic makeup.

A characteristic feature of enzyme activity in relation to the kind of substrate on which the enzyme or catalytic molecule reacts.

Species- or subspecies-specific DNA (including COMPLEMENTARY DNA; conserved genes, whole chromosomes, or whole genomes) used in hybridization studies in order to identify microorganisms, to measure DNA-DNA homologies, to group subspecies, etc. The DNA probe hybridizes with a specific mRNA, if present. Conventional techniques used for testing for the hybridization product include dot blot assays, Southern blot assays, and DNA:RNA hybrid-specific antibody tests. Conventional labels for the DNA probe include the radioisotope labels 32P and 125I and the chemical label biotin. The use of DNA probes provides a specific, sensitive, rapid, and inexpensive replacement for cell culture techniques for diagnosing infections.

Established cell cultures that have the potential to propagate indefinitely.

The relationship between the chemical structure of a compound and its biological or pharmacological activity. Compounds are often classed together because they have structural characteristics in common including shape, size, stereochemical arrangement, and distribution of functional groups.

The process by which a DNA molecule is duplicated.

In vitro method for producing large amounts of specific DNA or RNA fragments of defined length and sequence from small amounts of short oligonucleotide flanking sequences (primers). The essential steps include thermal denaturation of the double-stranded target molecules, annealing of the primers to their complementary sequences, and extension of the annealed primers by enzymatic synthesis with DNA polymerase. The reaction is efficient, specific, and extremely sensitive. Uses for the reaction include disease diagnosis, detection of difficult-to-isolate pathogens, mutation analysis, genetic testing, DNA sequencing, and analyzing evolutionary relationships.

Neoplasms of the base of the skull specifically, differentiated from neoplasms of unspecified sites or bones of the skull (SKULL NEOPLASMS).

DNA sequences which are recognized (directly or indirectly) and bound by a DNA-dependent RNA polymerase during the initiation of transcription. Highly conserved sequences within the promoter include the Pribnow box in bacteria and the TATA BOX in eukaryotes.

Short sequences (generally about 10 base pairs) of DNA that are complementary to sequences of messenger RNA and allow reverse transcriptases to start copying the adjacent sequences of mRNA. Primers are used extensively in genetic and molecular biology techniques.

Theoretical representations that simulate the behavior or activity of chemical processes or phenomena; includes the use of mathematical equations, computers, and other electronic equipment.

The process of cumulative change over successive generations through which organisms acquire their distinguishing morphological and physiological characteristics.

The presence of an uncomplimentary base in double-stranded DNA caused by spontaneous deamination of cytosine or adenine, mismatching during homologous recombination, or errors in DNA replication. Multiple, sequential base pair mismatches lead to formation of heteroduplex DNA; (NUCLEIC ACID HETERODUPLEXES).

A change from planar to elliptic polarization when an initially plane-polarized light wave traverses an optically active medium. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)

A multistage process that includes cloning, physical mapping, subcloning, determination of the DNA SEQUENCE, and information analysis.

Enzymes that catalyze DNA template-directed extension of the 3'-end of an RNA strand one nucleotide at a time. They can initiate a chain de novo. In eukaryotes, three forms of the enzyme have been distinguished on the basis of sensitivity to alpha-amanitin, and the type of RNA synthesized. (From Enzyme Nomenclature, 1992).

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.

Microscopy using an electron beam, instead of light, to visualize the sample, thereby allowing much greater magnification. The interactions of ELECTRONS with specimens are used to provide information about the fine structure of that specimen. In TRANSMISSION ELECTRON MICROSCOPY the reactions of the electrons that are transmitted through the specimen are imaged. In SCANNING ELECTRON MICROSCOPY an electron beam falls at a non-normal angle on the specimen and the image is derived from the reactions occurring above the plane of the specimen.

The biosynthesis of PEPTIDES and PROTEINS on RIBOSOMES, directed by MESSENGER RNA, via TRANSFER RNA that is charged with standard proteinogenic AMINO ACIDS.

Electrophoresis in which a polyacrylamide gel is used as the diffusion medium.

The part of a denture that overlies the soft tissue and supports the supplied teeth and is supported in turn by abutment teeth or the residual alveolar ridge. It is usually made of resins or metal or their combination.

Proteins found in any species of bacterium.

Computer-based representation of physical systems and phenomena such as chemical processes.

Proteins found in any species of virus.

DNA sequences encoding RIBOSOMAL RNA and the segments of DNA separating the individual ribosomal RNA genes, referred to as RIBOSOMAL SPACER DNA.

Proteins which bind to DNA. The family includes proteins which bind to both double- and single-stranded DNA and also includes specific DNA binding proteins in serum which can be used as markers for malignant diseases.

The process in which substances, either endogenous or exogenous, bind to proteins, peptides, enzymes, protein precursors, or allied compounds. Specific protein-binding measures are often used as assays in diagnostic assessments.

Injuries to DNA that introduce deviations from its normal, intact structure and which may, if left unrepaired, result in a MUTATION or a block of DNA REPLICATION. These deviations may be caused by physical or chemical agents and occur by natural or unnatural, introduced circumstances. They include the introduction of illegitimate bases during replication or by deamination or other modification of bases; the loss of a base from the DNA backbone leaving an abasic site; single-strand breaks; double strand breaks; and intrastrand (PYRIMIDINE DIMERS) or interstrand crosslinking. Damage can often be repaired (DNA REPAIR). If the damage is extensive, it can induce APOPTOSIS.

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).

Ketonic amines prepared from the condensation of a ketone with formaldehyde and ammonia or a primary or secondary amine. A Mannich base can act as the equivalent of an alpha,beta unsaturated ketone in synthesis or can be reduced to form physiologically active amino alcohols.

A family of DNA repair enzymes that recognize damaged nucleotide bases and remove them by hydrolyzing the N-glycosidic bond that attaches them to the sugar backbone of the DNA molecule. The process called BASE EXCISION REPAIR can be completed by a DNA-(APURINIC OR APYRIMIDINIC SITE) LYASE which excises the remaining RIBOSE sugar from the DNA.

The reconstruction of a continuous two-stranded DNA molecule without mismatch from a molecule which contained damaged regions. The major repair mechanisms are excision repair, in which defective regions in one strand are excised and resynthesized using the complementary base pairing information in the intact strand; photoreactivation repair, in which the lethal and mutagenic effects of ultraviolet light are eliminated; and post-replication repair, in which the primary lesions are not repaired, but the gaps in one daughter duplex are filled in by incorporation of portions of the other (undamaged) daughter duplex. Excision repair and post-replication repair are sometimes referred to as "dark repair" because they do not require light.

A low-energy attractive force between hydrogen and another element. It plays a major role in determining the properties of water, proteins, and other compounds.

Evidence on the conformation of HeLa-cell 5.8S ribosomal ribonucleic acid from the reaction of specific cytidine residues with sodium bisulphite. (1/178859)

The reaction of HeLa-cell 5.8S rRNA with NaHSO3 under conditions in which exposed cytidine residues are deaminated to uridine was studied. It was possible to estimate the reactivities of most of the 46 cytidine residues in the nucleotide sequence by comparing 'fingerprints' of the bisulphite-treated RNA with those of untreated RNA. The findings were consistent with the main features of the secondary-structure model for mammalian 5.85S rRNA proposed by Nazar, Sitz, & Busch [J. Biol. Chem (1975) 250, 8591--8597]. Five out of six regions that are depicted in the model as single-stranded loops contain cytidine residues that are reactive towards bisulphite at 25 degrees C (the other loop contains no cytidine). The cytidine residue nearest to the 3'-terminus is also reactive. Several cytidines residues that are internally located within proposed double-helical regions show little or no reactivity towards bisulphite, but the cytidine residues of several C.G pairs at the ends of helical regions show some reactivity, and one of the proposed loops appears to contain six nucleotides, rather than the minimum of four suggested by the primary structure. Two cytidine residues that are thought to be 'looped out' by small helix imperfections also show some reactivity. (+info)

Marker effects on reversion of T4rII mutants. (2/178859)

The frequencies of 2-aminopurine- and 5-bromouracil-induced A:T leads to G:C transitions were compared at nonsense sites throughout the rII region of bacteriophage T4. These frequencies are influenced both by adjacent base pairs within the nonsense codons and by extracodonic factors. Following 2AP treatment, they are high in amber (UAG) and lower in opal (UGA) codons than in allelic ochre (UAA) codons. In general, 5BU-induced transitions are more frequent in both amber and opal codons than in the allelic ochre codons. 2AP- and 5BU-induced transition frequencies in the first and third positions of opal codons are correlated with those in the corresponding positions of the allelic ochre codons. Similarly, the frequencies of 2AP-induced transition in the first and second positions of amber codons and their ochre alleles are correlated. However, there is little correlation between the frequencies of 5BU-induced transitions in the first and second positions of allelic amber and ochre codons. (+info)

Characterization of an amphioxus paired box gene, AmphiPax2/5/8: developmental expression patterns in optic support cells, nephridium, thyroid-like structures and pharyngeal gill slits, but not in the midbrain-hindbrain boundary region. (3/178859)

On the basis of developmental gene expression, the vertebrate central nervous system comprises: a forebrain plus anterior midbrain, a midbrain-hindbrain boundary region (MHB) having organizer properties, and a rhombospinal domain. The vertebrate MHB is characterized by position, by organizer properties and by being the early site of action of Wnt1 and engrailed genes, and of genes of the Pax2/5/8 subfamily. Wada and others (Wada, H., Saiga, H., Satoh, N. and Holland, P. W. H. (1998) Development 125, 1113-1122) suggested that ascidian tunicates have a vertebrate-like MHB on the basis of ascidian Pax258 expression there. In another invertebrate chordate, amphioxus, comparable gene expression evidence for a vertebrate-like MHB is lacking. We, therefore, isolated and characterized AmphiPax2/5/8, the sole member of this subfamily in amphioxus. AmphiPax2/5/8 is initially expressed well back in the rhombospinal domain and not where a MHB would be expected. In contrast, most of the other expression domains of AmphiPax2/5/8 correspond to expression domains of vertebrate Pax2, Pax5 and Pax8 in structures that are probably homologous - support cells of the eye, nephridium, thyroid-like structures and pharyngeal gill slits; although AmphiPax2/5/8 is not transcribed in any structures that could be interpreted as homologues of vertebrate otic placodes or otic vesicles. In sum, the developmental expression of AmphiPax2/5/8 indicates that the amphioxus central nervous system lacks a MHB resembling the vertebrate isthmic region. Additional gene expression data for the developing ascidian and amphioxus nervous systems would help determine whether a MHB is a basal chordate character secondarily lost in amphioxus. The alternative is that the MHB is a vertebrate innovation. (+info)

Regulation of body length and male tail ray pattern formation of Caenorhabditis elegans by a member of TGF-beta family. (4/178859)

We have identified a new member of the TGF-beta superfamily, CET-1, from Caenorhabditis elegans, which is expressed in the ventral nerve cord and other neurons. cet-1 null mutants have shortened bodies and male tail abnormal phenotype resembling sma mutants, suggesting cet-1, sma-2, sma-3 and sma-4 share a common pathway. Overexpression experiments demonstrated that cet-1 function requires wild-type sma genes. Interestingly, CET-1 appears to affect body length in a dose-dependent manner. Heterozygotes for cet-1 displayed body lengths ranging between null mutant and wild type, and overexpression of CET-1 in wild-type worms elongated body length close to lon mutants. In male sensory ray patterning, lack of cet-1 function results in ray fusions. Epistasis analysis revealed that mab-21 lies downstream and is negatively regulated by the cet-1/sma pathway in the male tail. Our results show that cet-1 controls diverse biological processes during C. elegans development probably through different target genes. (+info)

Activation of systemic acquired silencing by localised introduction of DNA. (5/178859)

BACKGROUND: In plants, post-transcriptional gene silencing results in RNA degradation after transcription. Among tobacco transformants carrying a nitrate reductase (Nia) construct under the control of the cauliflower mosaic virus 35S promoter (35S-Nia2), one class of transformants spontaneously triggers Nia post-transcriptional gene silencing (class II) whereas another class does not (class I). Non-silenced plants of both classes become silenced when grafted onto silenced stocks, indicating the existence of a systemic silencing signal. Graft-transmitted silencing is maintained in class II but not in class I plants when removed from silenced stocks, indicating similar requirements for spontaneous triggering and maintenance. RESULTS: Introduction of 35S-Nia2 DNA by the gene transfer method called biolistics led to localised acquired silencing (LAS) in bombarded leaves of wild-type, class I and class II plants, and to systemic acquired silencing (SAS) in class II plants. SAS occurred even if the targeted leaf was removed 2 days after bombardment, indicating that the systemic signal is produced, transmitted and amplified rapidly. SAS was activated by sense, antisense and promoterless Nia2 DNA constructs, indicating that transcription is not required although it does stimulate SAS. CONCLUSIONS: SAS was activated by biolistic introduction of promoterless constructs, indicating that the DNA itself is a potent activator of post-transcriptional gene silencing. The systemic silencing signal invaded the whole plant by cell-to-cell and long-distance propagation, and reamplification of the signal. (+info)

Molecular cloning and epitope analysis of the peanut allergen Ara h 3. (6/178859)

Peanut allergy is a significant IgE-mediated health problem because of the increased prevalence, potential severity, and chronicity of the reaction. Following our characterization of the two peanut allergens Ara h 1 and Ara h 2, we have isolated a cDNA clone encoding a third peanut allergen, Ara h 3. The deduced amino acid sequence of Ara h 3 shows homology to 11S seed-storage proteins. The recombinant form of this protein was expressed in a bacterial system and was recognized by serum IgE from approximately 45% of our peanut-allergic patient population. Serum IgE from these patients and overlapping, synthetic peptides were used to map the linear, IgE-binding epitopes of Ara h 3. Four epitopes, between 10 and 15 amino acids in length, were found within the primary sequence, with no obvious sequence motif shared by the peptides. One epitope is recognized by all Ara h 3-allergic patients. Mutational analysis of the epitopes revealed that single amino acid changes within these peptides could lead to a reduction or loss of IgE binding. By determining which amino acids are critical for IgE binding, it might be possible to alter the Ara h 3 cDNA to encode a protein with a reduced IgE-binding capacity. These results will enable the design of improved diagnostic and therapeutic approaches for food-hypersensitivity reactions. (+info)

TIF1gamma, a novel member of the transcriptional intermediary factor 1 family. (7/178859)

We report the cloning and characterization of a novel member of the Transcriptional Intermediary Factor 1 (TIF1) gene family, human TIF1gamma. Similar to TIF1alpha and TIF1beta, the structure of TIF1beta is characterized by multiple domains: RING finger, B boxes, Coiled coil, PHD/TTC, and bromodomain. Although structurally related to TIF1alpha and TIF1beta, TIF1gamma presents several functional differences. In contrast to TIF1alpha, but like TIF1beta, TIF1 does not interact with nuclear receptors in yeast two-hybrid or GST pull-down assays and does not interfere with retinoic acid response in transfected mammalian cells. Whereas TIF1alpha and TIF1beta were previously found to interact with the KRAB silencing domain of KOX1 and with the HP1alpha, MODI (HP1beta) and MOD2 (HP1gamma) heterochromatinic proteins, suggesting that they may participate in a complex involved in heterochromatin-induced gene repression, TIF1gamma does not interact with either the KRAB domain of KOX1 or the HP1 proteins. Nevertheless, TIF1gamma, like TIF1alpha and TIF1beta, exhibits a strong silencing activity when tethered to a promoter. Since deletion of a novel motif unique to the three TIF1 proteins, called TIF1 signature sequence (TSS), abrogates transcriptional repression by TIF1gamma, this motif likely participates in TIF1 dependent repression. (+info)

Telomerase reverse transcriptase gene is a direct target of c-Myc but is not functionally equivalent in cellular transformation. (8/178859)

The telomerase reverse transcriptase component (TERT) is not expressed in most primary somatic human cells and tissues, but is upregulated in the majority of immortalized cell lines and tumors. Here, we identify the c-Myc transcription factor as a direct mediator of telomerase activation in primary human fibroblasts through its ability to specifically induce TERT gene expression. Through the use of a hormone inducible form of c-Myc (c-Myc-ER), we demonstrate that Myc-induced activation of the hTERT promoter requires an evolutionarily conserved E-box and that c-Myc-ER-induced accumulation of hTERT mRNA takes place in the absence of de novo protein synthesis. These findings demonstrate that the TERT gene is a direct transcriptional target of c-Myc. Since telomerase activation frequently correlates with immortalization and telomerase functions to stabilize telomers in cycling cells, we tested whether Myc-induced activation of TERT gene expression represents an important mechanism through which c-Myc acts to immortalize cells. Employing the rat embryo fibroblast cooperation assay, we show that TERT is unable to substitute for c-Myc in the transformation of primary rodent fibroblasts, suggesting that the transforming activities of Myc extend beyond its ability to activate TERT gene expression and hence telomerase activity. (+info)

Here we will revise the state-of-the-art LLPS sequence-based predictors, briefly introducing them and explaining which are the ... LLPS often involves sequence regions that have unique functional characteristics, as well as the presence of prion-like and RNA ... Shea, Joan-Emma; Best, Robert B; Mittal, Jeetain (2021-04-01). "Physics-based computational and theoretical approaches to ... trying to understand the relationship between protein sequence properties and the capability to drive LLPS. ...

https://en.wikipedia.org/wiki/Liquid-liquid_phase_separation_sequence-based_predictors

The sequence is base-agnostic. That is, if a run of 10 repeated blocks is found, the next term in the sequence would be a ... Look-and-say sequence Kolakoski sequence Autogram Sloane, N. J. A. (ed.). "Sequence A090822 (Gijswijt's sequence: a(1) = 1; for ... The sequence can be broken into discrete "block" and "glue" sequences, which can be used to recursively build up the sequence. ... sequence A090822 in the OEIS) The sequence is similar in definition to the Kolakoski sequence, but instead of counting the ...

https://en.wikipedia.org/wiki/Gijswijt's_sequence

The six-base consensus sequence is AGGAGG; in Escherichia coli, for example, the sequence is AGGAGGU, while the shorter GAGG ... Base pairing between the 3'-end of the rRNA and the Shine-Dalgarno sequence in mRNA is a mechanism by which the cell can ... terminal 16S rRNA sequence can restore translation. Kozak consensus sequence, the sequence that targets the ribosome to the ... Many studies have confirmed that base pairing between the Shine-Dalgarno sequence in mRNA and the 3' end of 16S rRNA is of ...

https://en.wikipedia.org/wiki/Shine–Dalgarno_sequence

Templates are sequenced base-by-base during each read. Then, the data collection and analysis software aligns sample sequences ... Sequencing, by contrast, is thought to have less bias, although the sequencing bias of different sequencing technologies is not ... There are many new sequencing methods used in this sequencing step. Some technologies that analyze the sequences can use ... Massively parallel sequence analyses are used in conjunction with whole-genome sequence databases to analyze the interaction ...

https://en.wikipedia.org/wiki/ChIP_sequencing

... perform comprehensive assays based on sequencing-by-synthesis of base pairs. Following library amplification, a series of ... Reduced representation bisulfite sequencing DNA methylation Shotgun sequencing ChIP-sequencing Kawakatsu, Taiji (2020), ... which affects sequences with highly skewed base compositions due to high rates of polymerase sequence errors in high AT-content ... One of the biggest concerns is the potential of bias in the base composition of sequences and over-representation of methylated ...

https://en.wikipedia.org/wiki/Whole_genome_bisulfite_sequencing

... each base could be converted to one sequence instead of two), will sequence over 500 bases per second. Advantages of this ... Instead of one base being identified as it translocates through the pore, ~12 bases are required to find the sequence of one ... This sequencing method has a capacity of 50-250 bases per second per pore, and a four color fluorophore system ( ... This fluorescence sequencing method converts each base into a characteristic representation of multiple nucleotides which bind ...

https://en.wikipedia.org/wiki/Nanopore_sequencing

The similarity score is often based on sequence alignment. Sequence clustering is often used to make a non-redundant set of ... In bioinformatics, sequence clustering algorithms attempt to group biological sequences that are somehow related. The sequences ... sequences CluSTr: A single-linkage protein sequence clustering database from Smith-Waterman sequence similarities; covers over ... CD-HIT UCLUST in USEARCH Starcode: a fast sequence clustering algorithm based on exact all-pairs search. OrthoFinder: a fast, ...

https://en.wikipedia.org/wiki/Sequence_clustering

... very different from that of Sanger sequencing-also known as capillary sequencing or first-generation sequencing-which is based ... Massive parallel sequencing or massively parallel sequencing is any of several high-throughput approaches to DNA sequencing ... Clinical metagenomic sequencing First-generation sequencing Third-generation sequencing Ronaghi M, Karamohamed S, Pettersson B ... January 2010). "Human genome sequencing using unchained base reads on self-assembling DNA nanoarrays". Science. 327 (5961): 78- ...

https://en.wikipedia.org/wiki/Massive_parallel_sequencing

Weisstein, Eric W. "Aronson's Sequence". MathWorld. (Articles with short description, Short description matches Wikidata, Base- ... Aronson's sequence is an integer sequence defined by the English sentence "T is the first, fourth, eleventh, sixteenth, ... ... Cloitre, Sloane & Vandermast (2003) write that Aronson's sequence is "a classic example of a self-referential sequence." ... the sequence is credited to Jeffrey Aronson of Oxford, England. The sequence is infinite-and this statement requires some proof ...

https://en.wikipedia.org/wiki/Aronson's_sequence

Shotgun sequencing is a sequencing method designed for analysis of DNA sequences longer than 1000 base pairs, up to and ... RNA sequencing was one of the earliest forms of nucleotide sequencing. The major landmark of RNA sequencing is the sequence of ... Two main areas of nanopore sequencing in development are solid state nanopore sequencing, and protein based nanopore sequencing ... 0.75 per base. Meanwhile, sequencing of human cDNA sequences called expressed sequence tags began in Craig Venter's lab, an ...

https://en.wikipedia.org/wiki/DNA_sequencing

... they extend sequencing read lengths to an average of approximately 8,500 bases, with the longest reads exceeding 30,000 bases. ... Throughput varies based on the type of sample being sequenced. With the introduction of P6-C4 chemistry typical throughput per ... sequencing is a parallelized single molecule DNA sequencing method. Single-molecule real-time sequencing utilizes a zero-mode ... This P4 enzyme has average read lengths of more than 4,300 bases when paired with the C2 sequencing chemistry and more than ...

https://en.wikipedia.org/wiki/Single-molecule_real-time_sequencing

Now, next generation sequencing approaches are used. For Illumina sequencing, 36-base single-end sequencing reads are most ... Sequencing: The fragments are then sequenced. When RRBS was first developed, Sanger sequencing was initially used. ... Finally, Anchor-Based Bisulfite Sequencing (ABBS) was developed by Ben Delatte's group at Active Motif. This technology uses ... According to Gu et al., DNA fragments of 40-220 base pair are representative of the majority of promoter sequences and CpG ...

https://en.wikipedia.org/wiki/Reduced_representation_bisulfite_sequencing

One sequence can be complementary to another sequence, meaning that they have the base on each position in the complementary (i ... DNA sequencing is the process of determining the nucleotide sequence of a given DNA fragment. The sequence of the DNA of a ... Digital genetic sequences may be stored in sequence databases, be analyzed (see Sequence analysis below), be digitally altered ... In bioinformatics, a sequence entropy, also known as sequence complexity or information profile, is a numerical sequence ...

https://en.wikipedia.org/wiki/Nucleic_acid_sequence

Boolchandani, Manish; D'Souza, Alaric W.; Dantas, Gautam (June 2019). "Sequencing-based methods and resources to study ... High-throughput sequencing: all the nucleic acids fragments of the library are sequenced. The sequencing platform to be used is ... Shotgun sequencing Sequencing Clinical data management Govender, Kumeren N.; Street, Teresa L.; Sanderson, Nicholas D.; Eyre, ... In fact the Illumina monopoly on high-quality next-generation sequencing reagents and the need for accurate and deep sequencing ...

https://en.wikipedia.org/wiki/Clinical_metagenomic_sequencing

... (ESP) (sometimes "Paired-end mapping (PEM)") is a method based on sequence-tagged connectors developed ... "End-sequence profiling: Sequence-based analysis of aberrant genomes". Proceedings of the National Academy of Sciences. 100 (13 ... From the BAC library, both ends of the inserted fragments are sequenced using a sequencing platform. Detection of variations is ... Approximately 100-200 tumors can be sequenced at a resolution greater than 150kb when compared to sequencing an entire genome. ...

https://en.wikipedia.org/wiki/End-sequence_profiling

DNA sequences were originally read from sequencing gels by eye. With the advent of computerized base callers, humans no longer ... Oligotyping is the process of correcting DNA sequence measured during the process of DNA sequencing based on frequency data of ... With the advent of high throughput sequencing, the volume of sequence to be corrected exceeded human capacity for sequence ... called' the bases and instead 'corrected' the called bases. The bases were called by the software using the relative intensity ...

https://en.wikipedia.org/wiki/Oligotyping_(sequencing)

However, sequence conservation in ncRNAs is generally poor compared to protein-coding sequences, and base pairs that contribute ... Conserved sequences are typically identified by bioinformatics approaches based on sequence alignment. Advances in high- ... Sequences may also recombine or be deleted due to chromosomal rearrangements. Conserved sequences are sequences which persist ... orthologous sequences), or within a genome (paralogous sequences), or between donor and receptor taxa (xenologous sequences). ...

https://en.wikipedia.org/wiki/Conserved_sequence

... the raw sequence reads are filtered based on quality. The adaptor sequences are also trimmed off the raw sequence reads. The ... miRNA sequencing in and of itself is not a new idea, initial methods of sequencing utilized Sanger sequencing methods. ... polymerase-based sequence-by-synthesis on the Illumina (company) platform, or sequencing by ligation on the ABI Solid ... is the use of next-generation sequencing or massively parallel high-throughput DNA sequencing to sequence microRNAs, also ...

https://en.wikipedia.org/wiki/MicroRNA_sequencing

Figure 2). Although most other modalities are not true sequencing-based techniques, the term "bisulfite sequencing" is often ... Bisulfite sequencing (also known as bisulphite sequencing) is the use of bisulfite treatment of DNA before routine sequencing ... This is based on a multi-tiered strategy, whereby bisulfite sequencing is used to obtain high-resolution methylation profiles ... Oxidative bisulfite sequencing is a method to discriminate between 5-methylcytosine and 5-hydroxymethylcytosine at single base ...

https://en.wikipedia.org/wiki/Bisulfite_sequencing

The assembler will then construct sequences based on the De Bruijn graph. De Bruijn graph assemblers typically perform better ... De novo sequence assemblers are a type of program that assembles short nucleotide sequences into longer ones without the use of ... Peltola, Hannu; Söderlund, Hans; Ukkonen, Esko (1984-01-11). "SEQAID: a DNA sequence assembling program based on a mathematical ... Sequence assembly Sequence alignment De novo transcriptome assembly J. Bang-Jensen; G. Gutin; A. Yeo (2004). "When the greedy ...

https://en.wikipedia.org/wiki/De_novo_sequence_assemblers

Based on the sequence list, it generates complete sequences in spectra and scores them with the experimental spectrum. However ... Given previously predicted partial peptide sequence, neural-network-based de novo peptide sequencing models will repeatedly ... based de novo peptide sequencing algorithms can also be fast enough to achieve real-time peptide de novo sequencing. PEAKS ... proposed DeepNovo, the first deep learning based de novo sequencing software. The benchmark analysis in the original ...

https://en.wikipedia.org/wiki/De_novo_peptide_sequencing

DNA, based on A-T, C-G base pairs, are formed in well-aligned sequences. Through precise sequences of DNA, 20 amino acids are ... A sequence-controlled polymer is a macromolecule, in which the sequence of monomers is controlled to some degree. This control ... The property of sequence control make sequence-controlled polymers an ideal platform to install various kinds of pendants (like ... 2. Principle of sequence regulation and synthesis of sequence-regulated oligomers of functional vinyl ethers and styrene ...

https://en.wikipedia.org/wiki/Sequence-controlled_polymer

... a difference in DNA sequence amongst individuals. SSLPs are repeated sequences over varying base lengths in intergenic regions ... Simple Sequence Length Polymorphisms (SSLPs) are used as genetic markers with polymerase chain reaction (PCR). An SSLP is a ...

https://en.wikipedia.org/wiki/Simple_sequence_length_polymorphism

This sequences every Nth base, where N is the length of the probe left behind after cleavage. To sequence the skipped positions ... This sequencing by ligation method has been reported to have problems sequencing palindromic sequences. Sequencing by ... The target molecule to be sequenced is a single strand of unknown DNA sequence, flanked on at least one end by a known sequence ... and DNA ligase preferentially joins the molecule to the anchor when its bases match the unknown DNA sequence. Based on the ...

https://en.wikipedia.org/wiki/Sequencing_by_ligation

... a lower-case letter denotes the most common base at a position where the base can nevertheless vary the sequence in parentheses ... The Kozak consensus sequence is so common that the similarity of the sequence around the AUG codon to the Kozak Sequence is ... Kozak discovered the sequence through a detailed analysis of DNA genomic sequences. The Kozak sequence is not to be confused ... The A nucleotide of the "AUG" is delineated as +1 in mRNA sequences with the preceding base being labeled as −1. For a 'strong ...

https://en.wikipedia.org/wiki/Kozak_consensus_sequence

Though the presence of sequence based profilers are far and few in the present scenario, their key role will become evident ... A typical sequence profiling tool carries this further by using an actual DNA, RNA, or protein sequence as an input and allows ... A sequence profiling tool in bioinformatics is a type of software that presents information related to a genetic sequence, gene ... Entrez Metadata Sequence analysis Sequence motif Sequerome Peri S, Navarro JD, Kristiansen TZ, et al. (January 2004). "Human ...

https://en.wikipedia.org/wiki/Sequence_profiling_tool

Base-base correlation (BBC) converts the genome sequence into a unique 16-dimensional numeric vector using the following ... The pioneering approaches for sequence analysis were based on sequence alignment either global or local, pairwise or multiple ... Liu ZH, Sun X (2008). "Coronavirus phylogeny based on base-base correlation". International Journal of Bioinformatics Research ... based method employs the base correlation property of DNA sequence. IC and PIC were calculated using following formulas, I C ℓ ...

https://en.wikipedia.org/wiki/Alignment-free_sequence_analysis

Sobol sequences (also called LPτ sequences or (t, s) sequences in base 2) are an example of quasi-random low-discrepancy ... sequences in base b. To introduce them, define first an elementary s-interval in base b a subset of Is of the form ∏ j = 1 s [ ... These sequences use a base of two to form successively finer uniform partitions of the unit interval and then reorder the ... The original motivation of Sobol was to construct a sequence xn in Is so that lim n → ∞ 1 n ∑ i = 1 n f ( x i ) = ∫ I s f {\ ...

https://en.wikipedia.org/wiki/Sobol_sequence

0.01/base in 2004 to nearly $0.0001/base in 2006 and increased the sequencing capacity from 1,000,000 bases/machine/day in 2004 ... It uses 2 base encoding to decode the raw data generated by the sequencing platform into sequence data. This method should not ... A set of four fluorescently labelled di-base probes compete for ligation to the sequencing primer. Specificity of the di-base ... The method used by this machine (sequencing-by-ligation) has been reported to have some issue sequencing palindromic sequences ...

https://en.wikipedia.org/wiki/ABI_Solid_Sequencing

The classical shotgun sequencing was based on the Sanger sequencing method: this was the most advanced technique for sequencing ... The chain-termination method of DNA sequencing ("Sanger sequencing") can only be used for short DNA strands of 100 to 1000 base ... Clinical metagenomic sequencing DNA sequencing theory Staden, R (1979). "A strategy of DNA sequencing employing computer ... The clones are then sequenced from both ends using the chain termination method yielding two short sequences. Each sequence is ...

https://en.wikipedia.org/wiki/Shotgun_sequencing

The viral genetic material is contained in a linear double-stranded DNA consisting of 202,182 tightly packed base pairs. The ... Gubser, Caroline; Smith, Geoffrey (2001). "The sequence of Camelpox virus shows it is most closely related to Variola virus, ... Camelpox diagnosis can be based on symptoms. However, both Camel Contagious Ecthyma and Camel Papillomatosis cause ...

https://en.wikipedia.org/wiki/Camelpox

2004). "Complete sequencing and characterization of 21,243 full-length human cDNAs". Nat. Genet. 36 (1): 40-5. doi:10.1038/ ... 2006). "A probability-based approach for high-throughput protein phosphorylation analysis and site localization". Nat. ... 2002). "The DNA sequence and comparative analysis of human chromosome 20". Nature. 414 (6866): 865-71. Bibcode:2001Natur.414.. ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ...

https://en.wikipedia.org/wiki/UCKL1

... based on sequences of the cytochrome b gene". Molecular Phylogenetics and Evolution. 43 (1): 91-110. Pilack, M. (2020). " ... This cichlid was first scientifically described in 1913 based on specimens from the Cupe River, which is a part of the Tuira ...

https://en.wikipedia.org/wiki/Turquoise_cichlid

Courts these days are making policy-based decisions, untethered from any rule of law, aimed at killing patents they don't like ... So they wanted to focus on genetic fragments containing paternally inherited sequences the mother did not share, but had ... mc2 and based on a requirement to keep speculator trolls out: [I]f the breadth of the claim is sufficiently limited to a ...

https://en.wikipedia.org/wiki/Ariosa_v._Sequenom

The upcoming season that we're doing is much more horror-based; it's much more dark. It's about a theme and an idea that's very ... Same day the title sequence of the season was released by Murphy, consisting of the same soundtrack like previous seasons, ... The hotel is loosely based on the Cecil Hotel in Los Angeles, home to various deaths and tragedies. This season features ... Woerner, Meredith (October 1, 2015). "'American Horror Story: Hotel' title sequence is a germaphobe's nightmare". Los Angeles ...

https://en.wikipedia.org/wiki/American_Horror_Story:_Hotel

Lighting - node-based shader authoring, lighting and re-lighting in an IPR viewer Rendering - Houdini ships with SideFX's ... Digital assets are generally constructed by connecting sequences of operators (or OPs). This proceduralism has several ... Houdini's operator-based structure is divided into several main groups: OBJs - nodes that pass transform information ( ... This node graph architecture is similar to that employed in node-based compositors such as Shake or Nuke. Complex networks can ...

https://en.wikipedia.org/wiki/Houdini_(software)

"Delimitation of Sauropus (Phyllanthaceae) Based on Plastid matK and Nuclear Ribosomal ITS DNA Sequence Data." Annals of Botany ... "Molecular phylogenetic analysis of Euphorbiaceae sensu stricto based on plastid and nuclear DNA sequences and ovule and seed ... Pruesapan, K. (2008). "Delimitation of Sauropus (Phyllanthaceae) Based on Plastid matK and Nuclear Ribosomal ITS DNA Sequence ... based on nrITS and plastid matK DNA sequence data". American Journal of Botany. 93 (4): 637-655. doi:10.3732/ajb.93.4.637. PMID ...

https://en.wikipedia.org/wiki/Phyllanthaceae

There are a lot number of Kollam city based players in Indian hockey team as well as Kerala Hockey Team. Kollam is famous for ... Scoring points follow the sequence like otta, petta, pidiyan, thalm, Keezhu, Indan and then it repeats. The team which score ... "Kerala Blasters online fan base swells to 4.3 million, becomes 10th most followed football club in Asia". My Khel. 12 October ... his administrative base. Wellesley and his colleagues used to play cricket in nearby ground. The local natives engaged as ...

https://en.wikipedia.org/wiki/Sports_in_Kerala

Cardenas, M. Bayani (2009). "A model for lateral hyporheic flow based on valley slope and channel sinuosity". Water Resources ... Longer flowpaths are induced by geomorphic features, such as stream meander patterns, pool-riffle sequences, large woody debris ...

https://en.wikipedia.org/wiki/Hyporheic_zone

Purohit MK, Poduch E, Wei LW, Crandall IE, To T, Kain KC, Pai EF, Kotra LP (Nov 2012). "Novel cytidine-based orotidine-5'- ... Suttle DP, Bugg BY, Winkler JK, Kanalas JJ (Mar 1988). "Molecular cloning and nucleotide sequence for the complete coding ... Breda A, Machado P, Rosado LA, Souto AA, Santos DS, Basso LA (Aug 2012). "Pyrimidin-2(1H)-ones based inhibitors of ... Studies on OPRTase inhibition are based on substrate analogues. In Mycobacterium tuberculosis, two of the most promising ...

https://en.wikipedia.org/wiki/Uridine_monophosphate_synthase

... in genome sequencing technology and oligonucleotide synthesis paved the way for construction of synthetic genomes based on ... Heather, James M.; Chain, Benjamin (January 2016). "The sequence of sequencers: The history of sequencing DNA". Genomics. 107 ( ... As of March 2020, the full-length genome sequences of 9,240 different viruses, including the smallpox virus, are publicly ... as long as the information of their genome sequence is known and permissive cells are available. ...

https://en.wikipedia.org/wiki/Synthetic_virology

Geographic names: BGN/PCGN 1962 (US and UK), approximately equivalent to UNGEGN 1977 (United Nations), as both are based on the ... and so the transliterated sequence is ⟨ah⟩, ⟨aẖ⟩, ⟨aʻ⟩, etc. In certain rare words that are meant to begin with two consecutive ... the UNGEGN system based on the old-fashioned Hebrew Academy system, and the modern common informal Israeli transcription. In ... creates additional letters based on similar Hebrew or Cyrillic letters to represent the sounds that lack Roman letters. Finally ...

https://en.wikipedia.org/wiki/Romanization_of_Hebrew

... which was based on datagrams was replaced with Euronet based on X.25. Peter Kirstein wrote that European networks tended to be ... independently of other packets whereas a connection-oriented virtual circuit transports packets between terminals in sequence. ... It was the latter that translated to religious dogma." JANET was a free X.25-based network for academic use, not research; ... The growth of public data networks based on the X.25 protocol suite through the 1980s, notably the International Packet ...

https://en.wikipedia.org/wiki/Protocol_Wars

Although Dutch is based mostly on the Hollandic dialects, which in turn were influenced by Frisian, it was also heavily ... The sequence -nh- had already undergone a similar change in late Proto-Germanic several hundred years earlier, and affected all ... "Spirant" is an older term for "fricative".) The sequences in question are -ns-, -mf-, and -nþ-, preceded by any vowel. The ... Compare for example Luxembourgish eis ("us"), Gaus ("goose", now archaic). Modern Standard German is based more on eastern ...

https://en.wikipedia.org/wiki/Ingvaeonic_nasal_spirant_law

In this case the output sequence is called an l-sequence (for "long sequence"). l-sequences have many excellent statistical ... This can be solved with a variant of Mahler and De Weger's lattice based analysis of N-adic numbers when N = 2 {\displaystyle N ... If L is the size of the smallest FCSR that outputs the sequence (called the N-adic complexity of the sequence), then all these ... They are the with-carry analog of m-sequences or maximum length sequences. There are efficient algorithms for FCSR synthesis. ...

https://en.wikipedia.org/wiki/Feedback_with_Carry_Shift_Registers

Isolated from Tempe based on Enterobacterial Repetitive Intergenic Consensus-Polymerase Chain Reaction (ERIC-PCR)". HAYATI ... DNA sequence and mechanism of transfer". Journal of Bacteriology. 182 (1): 81-90. doi:10.1128/jb.182.1.81-90.2000. PMC 94243. ... Microbiological and Molecular Biological Analysis Based on 16S rRNA Gene". Microbiology Indonesia. 2 (1): 17-21. doi:10.5454/mi ...

https://en.wikipedia.org/wiki/Antonius_Suwanto

A significant portion of Deadpool 2, including the initial and final battle sequences, was filmed at Centre Lawn. Riverview ... and support of the mentally ill people transferred to community-based facilities and programs" (22). Despite financial cuts, ... the Vancouver Management Resource Group stated that the Vancouver Health Board was in the process of developing a budget based ... be careful assessment and supervision of patients being transferred from Riverview Hospital-that any transfers should be based ...

https://en.wikipedia.org/wiki/Riverview_Hospital_(Coquitlam)

The feet are adapted to perching rather than walking, and the front toes are partially joined at the base. Blue-and-white ... designation and sequence of orders, families, and species) and nomenclature (common and scientific names) are those of the ...

https://en.wikipedia.org/wiki/List_of_birds_of_the_Falkland_Islands

The detective eventually traps the killer and unmasks him, revealing him to be the opening-sequence host, who confesses "I dood ... is reading a book based on the cartoon in which he appears. Frightened, he muses that, according to the book, he is about to be ...

https://en.wikipedia.org/wiki/Who_Killed_Who?

Following further bacterial-based amplification, the DNA within in the interacting phage is sequenced to identify the ... Target proteins or DNA sequences are immobilized to the wells of a microtiter plate. Many genetic sequences are expressed in a ... were expressed both with and without the signal sequence. PelB (an amino acid signal sequence that targets the protein to the ... from which the phagemids can be collected and the relevant DNA sequence excised and sequenced to identify the relevant, ...

https://en.wikipedia.org/wiki/Phage_display

Based on the estimates of origin and diversification of the order Commelinales, which might have been sometime during the mid ... An analysis of DNA sequences indicate Geogenanthus is closely related to the genus Plowmanianthus followed by Cochliostema. ... Wade, D. J., Evans, T. M., & Faden, R. B. (2006). Subtribal relationships in tribe Tradescantieae (Commelinaceae) based on ... A cladistic analysis of rbcL sequences and morphology. Systematic Botany, 28(2), 270-292. Stevens, P. F. (2001 onwards). ...

https://en.wikipedia.org/wiki/Geogenanthus_poeppigii

"Sequence of Events Led to Development of Manor Grounds". Asheville Citizen-Times. July 9, 1967. Roosevelt, Eleanor (November 29 ... and his selection of three New York City-based men to design his resort. Architect Bradford Lee Gilbert designed the core ...

https://en.wikipedia.org/wiki/Albemarle_Park

Based upon an annual parallax shift of 38.2 mas as seen from Earth, it is located about 85 light years from the Sun. The star ... The stellar classification for this star is F7 V, indicating that it is an ordinary F-type main-sequence star. It is young, ... January 2004), "Magnetic activity in HD 111456, a young F5-6 main-sequence star", Astronomy and Astrophysics, 413 (2): 657−667 ... CS1 maint: postscript, Articles with short description, Short description matches Wikidata, F-type main-sequence stars, ...

https://en.wikipedia.org/wiki/HD_111456

Films based on works by Elmore Leonard, Films with screenplays by Elmore Leonard, Films directed by Richard Fleischer, Films ... Nancy and Majestyk drive away in a pickup truck with Renda's men in hot pursuit became one of the most famous chase sequences ... rating based on 17 reviews. List of American films of 1974 "Ford Trucks Beating - (1976) - 0:30 (USA)". Adland®. Retrieved 2016 ...

https://en.wikipedia.org/wiki/Mr._Majestyk

PTGS-2 is a sequence homodimer. Each monomer of the enzyme has a peroxidase and a PTGS (COX) active site. The PTGS (COX) ... Both the peroxidase and PTGS activities are inactivated during catalysis by mechanism-based, first-order processes, which means ... Dong L, Vecchio AJ, Sharma NP, Jurban BJ, Malkowski MG, Smith WL (May 2011). "Human cyclooxygenase-2 is a sequence homodimer ...

https://en.wikipedia.org/wiki/Prostaglandin-endoperoxide_synthase_2

For example, the union of k disjoint orthonormal bases of a vector space is a tight frame with A = B = k. A tight frame is a ... The operator mapping v ∈ V {\displaystyle \mathbf {v} \in V} to a sequence of coefficients c k {\displaystyle c_{k}} is called ... A Bessel Sequence is a set of vectors that satisfies only the upper bound of the frame condition. Suppose H is a Hilbert space ... while still maintaining norm equivalence between a signal and its sequence of coefficients. If the set { e k } {\displaystyle ...

https://en.wikipedia.org/wiki/Frame_(linear_algebra)

Bardem set out to imbue the character with "a rage based on dented pride," owing to his spectacular fall, from a high-ranking ... and Bruckheimer had previously mentioned that there might be a sequence in Louisiana. However, a spokesman for Australian Arts ... The studio chose them based on their Academy Award-nominated high-sea film Kon-Tiki, and their ability to work with a limited ... based on a well-received outline, saying they needed a script and budget everyone would approve. Depp was also invited to ...

https://en.wikipedia.org/wiki/Pirates_of_the_Caribbean:_Dead_Men_Tell_No_Tales

Costa Ricans are colloquially called "ticos" (based on the frequent use of the diminutive ending -ico following a /t/, as in ... Assibilation also affects the sequence /tɾ/, giving it a sound that is similar to [tʃ]. The double-R phoneme and the single-R ...

https://en.wikipedia.org/wiki/Costa_Rican_Spanish

English poetry is based on stress and alliteration. In alliteration, the first consonant in a word alliterates with the same ... the voiceless sonorants [w̥, l̥, n̥, r̥] occur after [h] in the sequences /xw, xl, xn, xr/. The above system is largely similar ... A thesaurus based on the definitions in Bosworth-Toller and the structure of Roget's Thesaurus. Though focused on later periods ... Although from the tenth century Old English writing from all regions tended to conform to a written standard based on Late West ...

https://en.wikipedia.org/wiki/Old_English

... who is based in the University of Madras, has stated that he does not agree with the part of the article that advises people to ... and a novel erythromycin esterase gene carried on a unique genetic structure in Klebsiella pneumoniae sequence type 14 from ...

https://en.wikipedia.org/wiki/New_Delhi_metallo-beta-lactamase_1

Holmes, H. C; Davis, C. L; Heath, A. B; World Health Organization. Biologicals Unit; WHO Expert Committee on Biological Standardization (‎2003 : Geneva, Switzerland)‎ (‎World Health OrganizationWorld Health Organization, 2003)‎ ...

https://apps.who.int/iris/browse?authority=Base+Sequence&type=mesh

https://extranet.who.int/iris/restricted/browse?authority=Base+Sequence&type=mesh

... ... Results: We introduce the maxAlike algorithm, which reconstructs a genomic sequence for a specific taxon based on sequence ... Consensus sequences are then reconstructed based on a certain confidence level. For 37 out of 44 target species in a test ... The improved sequence reconstruction also leads to an increase of the quality of PCR primer design for yet unsequenced genes: ...

https://pubmed.ncbi.nlm.nih.gov/21123221/

Hybridization between a DNA sequence and its basepairing complement is crucial to retrieve the informationstored in DNA ... sequences and operate a computationoperation in DNA computing. ... An Ant Colony System for DNA Sequence Design based on ... DNA Sequence Design, Ant Colony System (ACS), Thermodynamic. Abstract. Hybridization between a DNA sequence and its base ... In this paper, Ant Colony System (ACS) is proposed to solve the DNA sequence design problem. ACS as a derivate from Ant Colony ...

https://www.actapress.com/Abstract.aspx?paperId=33002

... Show full item record ... The HPUFs were screened for toxic properties (toxHPUFs) with a novel, Next Generation Sequencing (NGS)-based approach. This ... Screening of Bacteriophage Encoded Toxic Proteins with a Next Generation Sequencing-Based Assay. ... next-generation sequencing toxic protein screen ESCHERICHIA-COLI PHAGE SEARCH RECG IDENTIFICATION COMPLEXES DISCOVERY HELICASE ...

https://helda.helsinki.fi/handle/10138/332770

A research team using whole-genome sequencing to track a form of methicillin-resistant Staphylococcus aureus found in livestock ... Sequencing-based Tracking Finds Animal-to-Human MRSA Transmission on Danish Farm Mar 26, 2013 , staff reporter ... "By looking at the single differences in nucleotides or SNPs in the DNA sequences of each isolate, it became obvious that two ... NEW YORK (GenomeWeb News) - A research team using whole-genome sequencing to track a form of methicillin-resistant ...

https://www.genomeweb.com/sequencing/sequencing-based-tracking-finds-animal-human-mrsa-transmission-danish-farm

Sequence-Based Identification of Metronidazole-Resistant Clostridioides difficile Isolates Wiep Klaas Smits. , Céline Harmanus ... Comparison of pCD-METRO open reading frames and phylogenetic analysis in study of sequence-based identification of ... A) Linear maps compare the open reading frames (ORF)1-8 of the pCD-METRO reference sequence (identical to the RT005 plasmid) ... PlasmidFinder and In Silico pMLST: identification and typing of plasmid replicons in whole-genome sequencing (WGS). Methods Mol ...

https://wwwnc.cdc.gov/eid/article/28/11/22-0615-f1

Sequencing-Based Diagnostics Critical to Fighting Against Infectious Disease. While sequencing-based diagnostics have been used ... Weekly Rounds: Immunological Debt, Sequencing-Based Diagnostics, and More. .social-ris-container { display: flex; justify- ...

https://www.infectioncontroltoday.com/view/weekly-rounds-immunological-debt-sequencing-based-diagnostics-more

Base class for all bounded sequences. More... #include ,Sequence.h,. Inheritance diagram for TAO_Bounded_Base_Sequence:. [ ... ACE_INLINE TAO_Bounded_Base_Sequence::TAO_Bounded_Base_Sequence ( void ) [protected]. ... ACE_INLINE TAO_Bounded_Base_Sequence::TAO_Bounded_Base_Sequence ( CORBA::ULong maximum, ... ACE_INLINE TAO_Bounded_Base_Sequence::TAO_Bounded_Base_Sequence ( CORBA::ULong maximum, ...

https://www.dre.vanderbilt.edu/Doxygen/5.4.3/html/tao/classTAO__Bounded__Base__Sequence.html

Divisibility sequences based on recurrence relations Combinatorics & Combinatorial Number Theory ... Divisibility sequences based on recurrence relations Recall the two types of divisibility sequences which are primarily ... Recall the two types of divisibility sequences which are primarily involved in Lucas Sequences:. For U(n), if r divides s, then ... divisibility sequence, and there is also a corresponding V(n) sequence?. The only values I am aware which make this true is {1 ...

https://www.mersenneforum.org/showthread.php?p=474471

SECONDARY STRUCTURE DETERMINATION FOR ALPHA-NEUROTOXIN FROM DENDROASPIS POLYLEPIS POLYLEPIS BASED ON SEQUENCE SPECIFIC PROTON ... SECONDARY STRUCTURE DETERMINATION FOR ALPHA-NEUROTOXIN FROM DENDROASPIS POLYLEPIS POLYLEPIS BASED ON SEQUENCE SPECIFIC PROTON ... Secondary structure determination for alpha-neurotoxin from Dendroaspis polylepis polylepis based on sequence-specific 1H- ... Sequence Clusters. 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity. ...

https://www.rcsb.org/structure/1NTX

With 189 member countries, staff from more than 170 countries, and offices in over 130 locations, the World Bank Group is a unique global partnership: five institutions working for sustainable solutions that reduce poverty and build shared prosperity in developing countries. ...

https://documents.worldbank.org/pt/publication/documents-reports/documentdetail/982641598357126676/disclosable-version-of-the-isr-jsdf-community-based-social-service-delivery-project-p165346-sequence-no-04

The method is based on the planar approximation of a person that is valid when human identification at a distance is desired. ... The goal of this thesis is to investigate the information contained in the video sequences of human gait and how to extract and ... We present a view invariant gait recognition algorithm which is based on synthesizing a side view of a person from an arbitrary ... Human identification using gait, similar to text-based speaker identification, involves different individuals performing the ...

https://drum.lib.umd.edu/handle/1903/272

... Publication. Date: 16th April ... Nanopore sequencing offers advantages in all areas of research. Our offering includes DNA sequencing, as well as RNA and gene ... Research Real-time DNA and RNA sequencing - from portable to high-throughput devices. Q-Line Locked-down, research-validated ... Oxford Nanopore Technologies Fully scalable, real-time DNA/RNA sequencing technology Oxford Nanopore Diagnostics Nanopore ...

https://nanoporetech.com/resource-centre/field-and-classroom-initiatives-portable-sequence-based-monitoring-dengue-virus

... iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing. ... iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing. - GitHub - andersen ... An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar ... iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing. Additional tools ...

https://github.com/andersen-lab/ivar

Mini-exon repeat PCR combines high sensitivity and specificity, and allows differentiation between species by sequencing of the ... Imported leishmaniasis in the Netherlands from 2005 to 2012: epidemiology, diagnostic techniques and sequence-based species ... Imported leishmaniasis in the Netherlands from 2005 to 2012: epidemiology, diagnostic techniques and sequence-based species ... Mini-exon repeat PCR combines high sensitivity and specificity, and allows differentiation between species by sequencing of the ...

https://www.eurosurveillance.org/content/10.2807/1560-7917.ES2013.18.30.20544

Species delineation based on 16S rDNA-sequencing is limited because of divergence between cistrons, roughly equivalent to ... The gyrB gene-sequencing approach is discussed as an alternative for investigating the taxonomy of Vibrio species. ... Despite a high level of sequence similarity, strains were separated into 2 clades. In the phylogenetic tree constructed on the ... Phylogenetic analysis of V. splendidus-related strains was carried out using the nucleotide sequences of 16S ribosomal DNA (16S ...

https://hal.archives-ouvertes.fr/hal-00458183

... ... Mass spectrometry-based computational identification of ancient protein sequences to unravel evolutionary history ... Gutenbrunner, Petra (2021): Mass spectrometry-based computational identification of ancient protein sequences to unravel ...

https://edoc.ub.uni-muenchen.de/29625/

Anchor-Based Bisulfite Sequencing (ABBS) and the advantages it has for measuring DNA methylation on a genome-wide scale in ... WEBINAR] Anchor-Based Bisulfite Sequencing (ABBS) Determines Genome-wide DNA Methylation. * [WEBINAR] Novel Translational CUT& ... WEBINAR] Anchor-Based Bisulfite Sequencing (ABBS) Determines Genome-wide DNA Methylation. In this webinar, Dr. Benjamin Delatte ... Anchor-Based Bisulfite Sequencing (ABBS) and the advantages it has for measuring DNA methylation on a genome-wide scale in ...

https://www.activemotif.com/anchor-based-bisulfite-sequencing-abbs-genome-wide-dna-methylation-webinar-access

Q: Can I import FASTA files containing multiple sequences in WIPO Sequence? Nov 25, 2022 • Consuelo CONDE YUBERO ... Q: Can I edit in bulk the mol_type qualifier value for a range of sequences? Jul 19, 2022 • Consuelo CONDE YUBERO ... Q: Do I have to manually change each u to t in an RNA sequence? Jun 30, 2022 • Consuelo CONDE YUBERO ... Q: For the Windows distribution, is there also an .msi installer for WIPO Sequence? Sep 02, 2022 • Emma Francis ...

https://www3.wipo.int/confluence/label/WSSKB/wipo-sequence

The capacity and speed of modern DNA sequencing platforms has allowed sequencing to become an integral component of bi ... Enabling Sequencing Applications with Improved Transposase-Based Solutions. Sponsored by: seqWell C.E. Credits: P.A.C.E. CE ｜ ... Recognize how transposase-based library prep methods permit significant improvements in sequencing workflows without ... The capacity and speed of modern DNA sequencing platforms has allowed sequencing to become an integral component of biomedical ...

https://www.labroots.com/ms/webinar/enabling-sequencing-applications-improved-transposase-based-solutions?campaign=POPup

Based on Hadoop and HBase, we developed SeqHBase, a big data-based toolset for analysing family based sequencing data to detect ... a big data-based toolset designed for analysing large family based sequencing data to detect mutations that may be disease- ... Therefore, the design of SeqHBase can be applied to large number of family and/or population-based sequencing studies that are ... It shows very good performance on three different examples of family based sequencing data and is scalable by virtue of its ...

https://jmg.bmj.com/content/52/4/282

MGmapper is a package to process raw next generation sequence data and perform reference based sequence assignment, followed by ... MGmapper is a package to process raw next generation sequence data and perform reference based sequence assignment, followed by ... MGmapper is a package to process raw next generation sequence data and perform reference based sequence assignment, followed by ... MGmapper is a package to process raw next generation sequence data and perform reference based sequence assignment, followed by ...

https://orbit.dtu.dk/en/publications/mgmapper-reference-based-mapping-and-taxonomy-annotation-of-metag

Based on a thorough analysis of methods for defining sequences, Moore machines have been selected for representing complex ... Based on such automata, properties of behaviour networks that realise task sequences can be verified or falsified. Extensive ... Their component-based nature facilitates the distributed implementation of systems, fosters reuse, and allows for early testing ... presents a novel integrated concept for the design and verification of behaviour-based systems that realise task sequences. ...

https://kluedo.ub.uni-kl.de/frontdoor/index/index/searchtype/authorsearch/author/%22Armbrust%2C+Christopher%22/rows/1/subjectfq/behaviour-based+system/docId/4181/start/0

... ... and/or identifying hotspots are mostly based on the likelihood of observed haplotypes or linkage disequilibrium (LD) patterns. ... and population structure robust approach via multiple linear regression and non-parametric bootstrap based on the frequency ...

https://ecommons.cornell.edu/handle/1813/3213

Capsular types Ia, Ib, II, III, IV and V were detected among the 43 isolates sequenced. Twelve sequence types (STs) were ... Nigeria using a whole-genome sequence-based approach. ... Whole genome sequencing has, in recent years, emerged as a ... The data available from the whole genome sequencing of these isolates offers a small but insightful description of common ... Bob-Manuel, M., McGee, L., Igunma, J.A. et al. Whole genome sequence based capsular typing and antimicrobial resistance ...

https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-021-07929-z

NGS-Based RNA-Sequencing Market by Product & Services (Sample Preparation, Platforms & Consumables, Services, Data Analysis), ...

https://www.marketsandmarkets.com/RequestBundleReport.asp?id=102977816

This report aims to provide detailed insights into the NGS-based RNA-sequencing market. It provides valuable information on the ... Based on application, the NGS-Based RNA-Sequencing Market is segmented into expression profiling analysis, small RNA sequencing ... Based on technology, the NGS-based RNA-sequencing industry is segmented into sequencing by synthesis, ion semiconductor ... NGS-Based RNA-Sequencing Market Size, Share, Growth, Emerging Trends, Major Players and Industry Outlook. NGS-Based RNA- ...

https://emailwire.com/release/1137173-NGSBased-RNASequencing-Market-Size-Share-Growth-Emerging-Trends-Major-Players-and-Industry-Outlook.html

We tackle the challenge of tallying frequency counts of rare, sequenced alleles, for meta-analysis of sequencing data without ... We have thus developed MetaSeq, a protocol for meta-analysis of genome-wide sequencing data by multiple collaborating parties, ... schemes for NGS association rely on the frequency of each variant thus requiring the exchange of identity of the sequenced ... Human genetics recently transitioned from GWAS to studies based on NGS data. For GWAS, small effects dictated large sample ...

https://academiccommons.columbia.edu/doi/10.7916/D8FN1H8S

Dive into the research topics of Source code watermarking based on function dependency oriented sequencing. Together they ...

https://researchers.mq.edu.au/en/publications/source-code-watermarking-based-on-function-dependency-oriented-se/fingerprints/

Comparison of pCD-METRO open reading frames and phylogenetic analysis in study of sequence-based identification of metronidazole-resistant Clostridioides difficile isolates. (cdc.gov)
No ribotyping information was available for the ST15 isolate, but it should be noted that RT010 isolates belong to the same sequence type. (cdc.gov)
Despite their geographical proximity to one another and sequence type similarities between outbreak isolates, results from new genomic and phylogenetic analyses indicated that each of the outbreaks could be traced back to MRSA with distinguishing variants. (genomeweb.com)
In an effort to better understand the epidemiology and transmission patterns for mecC-MRSA involved in the two Danish farm outbreaks, researchers used Illumina's HiSeq 2000 to perform whole-genome sequencing on isolates from each. (genomeweb.com)
For instance, they found that mecC-MRSA isolates from both Danish farms were missing certain virulence factors that are present in the ST398 sequence type or in other, community-associated forms of MRSA. (genomeweb.com)
This study characterized vaginal and rectal isolates of Group B Streptococcus obtained from pregnant women in Port Harcourt, Nigeria using a whole-genome sequence-based approach. (biomedcentral.com)
Twelve sequence types (STs) were identified, with ST19 ( n = 9, 27.3 %) and ST486 ( n = 5, 15.2 %) the most frequent among non-duplicated isolates. (biomedcentral.com)
The data available from the whole genome sequencing of these isolates offers a small but insightful description of common serotypes and resistance features within colonizing GBS in Nigeria. (biomedcentral.com)
This study analysed whole genome sequences of colonizing Group B Streptococcus isolates from vaginal and rectal swabs obtained from a previously described study in pregnant women in Port Harcourt, Nigeria [ 16 ]. (biomedcentral.com)
Based on an investigation of 154 C. difficile isolates comprising 75 ribotypes, tandem repeat sequencing demonstrated excellent concordance with widely used PCR ribotyping and equal discriminatory power. (biomedcentral.com)
Moreover, tandem repeat sequences enabled the reconstruction of the isolates' largely clonal population structure and evolutionary history. (biomedcentral.com)
Isolates from this patient, sequenced by the state laboratory, demonstrated genotypic changes in F13L associated with tecovirimat resistance. (cdc.gov)
We used whole-genome sequencing of Mycobacterium tuberculosis isolates from patients to identify genotypic clusters and assess the association between previous incarceration and TB transmission in the community. (cdc.gov)

Applications include not only compensation for missing data in unsequenced genomic regions and the design of oligonucleotide primers for target genes in species with lacking sequence information but also the preparation of customized queries for homology searches. (nih.gov)
The improved sequence reconstruction also leads to an increase of the quality of PCR primer design for yet unsequenced genes: the differences between the expected T(m) and real T(m) of the primer-template duplex can be reduced by ~26% compared with other reconstruction approaches. (nih.gov)
Altogether, 32 genes encoding hypothetical proteins of unknown function (HPUFs) were identified from the genomic sequence of fHy-Eco03. (helsinki.fi)
Whole-genome sequencing and annotation of BYM showed that 3.2 Mb chromosome and 47.11 kb plasmid coexisted, and 322 genes associated with iron metabolism were discovered. (researchsquare.com)
Transposon insertion sequencing methods combines next-generation sequencing techniques with transposon mutagenesis for the exploration of the essentiality of genes under different environmental conditions. (nsf.gov)
When applied to RB-TnSeq (randomized barcode transposon sequencing) and Tn-seq (transposon sequencing) libraries made in strains of Caulobacter crescentus using both total and unique count data the model was able to identify a set of conditionally beneficial or conditionally detrimental genes for each target condition that shed light on their functions and roles during various stress conditions. (nsf.gov)
Beginning in 1990 and finishing in 2003, the Human Genome Project was an international research initiative that aimed to write the entire sequence of nucleotide base pairs that make up the human genome, including the mapping of all its genes that determine our physical and functional attributes. (soci.org)
The publicly funded $3bn project was able to map 99% of the human genome with 99.99% accuracy, which included its 3.2bn Mega-base pairs, 20,000 genes and 23 chromosome pairs, and has led to advancements in bioinformatics, personalised medicine and a deeper understanding of human evolution. (soci.org)
When postdoc and lead author of the study Andrew Anzalone joined David Liu 's lab at the Broad Institute, which previously developed the technique for base editing, he was especially excited by the possibility of editing genes without using DNA breaks. (the-scientist.com)
Current diagnostic PCR assays target a variety of SARS CoV-2 genes and the vast majority target sequences in regions of the SARS CoV-2 genome that are highly conserved. (who.int)
For instance, vitamin A reduces the risk of analyses based on genes indicated that the virus belongs viral infections and has beneficial effects on the lungs to the family of beta-coronaviruses ( 5 ). (who.int)
KARGAMobile: Android app for portable, real-time, easily interpretable analysis of antibiotic resistance genes via nanopore sequencing. (cdc.gov)

Nanopore sequencing offers advantages in all areas of research. (nanoporetech.com)
Based on technology, the NGS-based RNA-sequencing industry is segmented into sequencing by synthesis, ion semiconductor sequencing, single molecular real-time sequencing, and nanopore sequencing. (emailwire.com)
Nanopore sequencing technology registers the highest growth rate in the market as it is the only sequencing technology with direct RNA sequencing capabilities and facilitates sequencing of full-length RNA strands and modified RNA nucleotides using a simple library prep, without the need of conversion to double-stranded DNA. (emailwire.com)
The genome sequence of EC1390 was determined by Nanopore MinION MK1C platform. (bvsalud.org)

Nucleotide sequence and amino acid sequence of our carp growth hormone gene are the same as Koren's carp GH cDNA in the coded region. (nih.gov)
Compared with Chao's carp GH cDNA, the homology of nucleotide sequence and amino acid sequence for our carp growth hormone gene is 95.6% and 96.7%, respectively, in the coded region. (nih.gov)
HuCaT uses an algorithm based on number of matching queries, k-mers are used to calculate the actual matching nucleic acid k-mers (short substrings of DNA [n 9 nt in number of nucleotide sequence matches for type assignment using the HuCaT]) to build alignments between query and reference sequences. (cdc.gov)
To deselect, click back on the nucleotide sequence. (addgene.org)
Displays a graphical map based on nucleotide sequence data labeled with restriction enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. (addgene.org)
List of restriction enzymes that can cut a given nucleotide sequence. (addgene.org)
List of common features detected in a given nucleotide sequence. (addgene.org)
It is also called nucleotide sequence. (bvsalud.org)

andersen-lab/ivar: iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing. (github.com)
iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing. (github.com)
or amplicon-based sequencing data. (who.int)

The pipeline is generic and may be applied to most transposons and to any two or more genomes sharing high sequence similarity. (biomedcentral.com)
Commonly, HIV-1 transmission chains are determined based on sequence similarity assessed either directly from a sequence alignment or by inferring a phylogenetic tree. (lu.se)
BLAT on DNA is designed to quickly find sequences of 95% and greater similarity of length 25 bases or more. (ucsc.edu)
BLAT on proteins finds sequences of 80% and greater similarity of length 20 amino acids or more. (ucsc.edu)
BLAST (Basic Local Alignment Search Tool) finds regions of similarity between biological sequences. (addgene.org)

NEW YORK (GenomeWeb News) - A research team using whole-genome sequencing to track a form of methicillin-resistant Staphylococcus aureus found in livestock and humans has uncovered genetic evidence confirming animal-to-human transmission of the bug during at least one farm outbreak in Denmark. (genomeweb.com)
Advances in next-generation sequencing (NGS) technologies have made it possible to systematically search for rare disease-contributing genetic variants in human genomic studies. (bmj.com)
We propose a model-based method that uses regularized negative binomial regression to estimate the change in transposon insertions attributable to gene-environment changes in this genetic interaction study without transformations or uniform normalization. (nsf.gov)
More than 6,000 flu viruses undergo full genetic sequencing as a first step after they arrive at CDC. (cdc.gov)
That's why genetic sequencing of flu viruses-both seasonal and novel-is so important. (cdc.gov)
Genetic sequencing can give us information about each virus based on decades of other laboratory work. (cdc.gov)
For example, we have identified markers that have previously been associated with severe illness, or antiviral resistance, and if we see those markers in the genetic sequence of a newly detected novel flu virus, that gives us a heads up that this virus is important to look at further. (cdc.gov)
If we have the genetic sequence information, we can actually build the same virus in our labs and use it to make a CVV. (cdc.gov)
When a new sub-group of Asian A(H7N9) viruses emerged in China in 2017, Chinese public health officials posted the genetic sequence of the virus and CDC was able to make a virus based on that genetic sequence. (cdc.gov)
their study was based on analyzed genetic sequences from 192 avian- flu samples collected across Asia and northern Europe to identify mutations that have occurred during the virus's evolution. (asianews.it)

The availability of multiple whole genome sequences has facilitated in silico identification of fixed and polymorphic transposable elements (TE). (biomedcentral.com)

Chromosome position in bases. (ucsc.edu)

Many polymerase chain reaction-based molecular techniques have been adopted with far reaching clinical outcome. (who.int)

Outputs include alignments and phylogenetic trees of the 12 top matching reference sequences for each query. (cdc.gov)
It may miss more divergent or shorter sequence alignments. (ucsc.edu)
References Chiaromonte F, Yap VB, Miller W. Scoring pairwise genomic sequence alignments. (ucsc.edu)

The task of reconstructing a genomic sequence from a particular species is gaining more and more importance in the light of the rapid development of high-throughput sequencing technologies and their limitations. (nih.gov)
We introduce the maxAlike algorithm, which reconstructs a genomic sequence for a specific taxon based on sequence homologs in other species. (nih.gov)

The input is a multiple sequence alignment and a phylogenetic tree that also contains the target species. (nih.gov)
For 37 out of 44 target species in a test dataset, we obtain a significant increase of the reconstruction accuracy compared to both the consensus sequence from the alignment and the sequence of the nearest phylogenetic neighbor. (nih.gov)
We implemented the following functions in iVar: (1) trimming of primers and low-quality bases, (2) consensus calling, (3) variant calling - both iSNVs and insertions/deletions, and (4) identifying mismatches to primer sequences and excluding the corresponding reads from alignment files. (github.com)
To this end, we have designed RISCI - 'Repeat Induced Sequence Changes Identifier' - a comprehensive, comparative genomics-based, in silico subtractive hybridization pipeline to identify differential transposon insertions and associated sequence changes using specific alignment signatures, which may then be examined for their downstream effects. (biomedcentral.com)
This paper presents the design and implementation of the most parameterisable field-programmable gate array (FPGA)-based skeleton for pairwise biological sequence alignment reported in the literature. (ed.ac.uk)
It implements the sequence alignment algorithm in hand using a pipeline of basic processing elements, which are tailored to the algorithm parameters. (ed.ac.uk)
For instance, actual hardware implementations of the Smith-Waterman algorithm for Protein sequence alignment achieve speedups of two orders of magnitude compared to equivalent standard desktop software implementations. (ed.ac.uk)
Benkrid, A. / A Highly Parameterized and Efficient FPGA-Based Skeleton for Pairwise Biological Sequence Alignment . (ed.ac.uk)
Using data from two recent TIS studies, we have developed a series of workflows that include multiple tools for data de-multiplexing, promoter sequence identification, transposon flank alignment, and read count repartition across the genome. (nsf.gov)

Phylogenetic study and identification of Vibrio splendidus-related strains based on gyrB gene sequences. (archives-ouvertes.fr)
Tandem repeat sequence typing resolves phylogenetic diversity to a level equivalent to PCR ribotypes. (biomedcentral.com)
Noroviruses are associated with an compared to an established set of reference sequences to determine estimated 70,000-200,000 deaths annually [2,3 ] while sapoviruses genotypes and polymerase types based on phylogenetic clustering, or by primarily cause sporadic AGE in young children although outbreaks in employing NCBI BLAST web service. (cdc.gov)

Based on Hadoop and HBase, we developed SeqHBase, a big data-based toolset for analysing family based sequencing data to detect de novo, inherited homozygous, or compound heterozygous mutations that may contribute to disease manifestations. (bmj.com)
The results of whole exome sequencing displayed that there were compound heterozygous mutations in F12 gene of the proband, including the c.1261Gï¼ T heterozygous nonsense mutation in exon 11 (causing p.Glu421*) and the c.251dupG heterozygous frameshift mutation in exon 4 (causing p.Trp85Metfs*53). (bvsalud.org)

abstract = "This paper introduces the first ever appearance-based simulator of burst illumination laser sequences from a single, conventional video image of a vehicle. (hw.ac.uk)

Background Whole-genome sequencing (WGS) and whole-exome sequencing (WES) technologies are increasingly used to identify disease-contributing mutations in human genomic studies. (bmj.com)
The mutations were changed back to healthy DNA sequences with 35-55 percent efficiency, similar to rates that would likely be achieved with CRISPR-Cas9 editing. (the-scientist.com)
Possible disease-causing mutations of F12 gene were obtained and further confirmed by Sanger sequencing. (bvsalud.org)

The complete genome sequencing of MTB strains was first achieved in a model microorganism M. magneticum AMB-1 and then the genomes of about 17 strains of MTB have also become available. (researchsquare.com)
Although such changes have been studied independently, no automated platform to identify differential transposon insertions and the associated array of sequence changes in genomes of the same or closely related species is available till date. (biomedcentral.com)
The understanding of bacterial gene function has been greatly enhanced by recent advancements in the deep sequencing of microbial genomes. (nsf.gov)
We sequenced the genomes of 28 strains of Snodgrassella alvi , a characteristic bee gut microbe, and found tremendous variability in their Rhs toxin complements: altogether, these strains appear to encode hundreds of unique toxins. (nsf.gov)

Only DNA sequences of 25,000 or fewer bases and protein or translated sequence of 10000 or fewer letters will be processed. (ucsc.edu)
But while it is comparatively easy to make changes to the strand of DNA that serves as the blueprint for a given protein, it remains challenging to determine which specific base pairs - rungs on the DNA ladder - are the keys to producing a desired effect. (nanowerk.com)
CDC has analyzed sequences from more than 4,000 specimens from across the world, and only 13 changes in the F13L protein were found, including the two cases included in this HAN Update. (cdc.gov)
Haplogroups were defined based on HVS I sequences and examinations of haplogroup-associated polymorphic sites of the protein coding region and of HVS II. (blogspot.com)
A serum immunoblotting assay based on monoclonal antibodies to oncogene protein sequences was used to investigate serum oncogene protein expression in cancer patients versus normal controls and in cohorts exposed to occupational carcinogens. (cdc.gov)

Illumina dominates the RNA sequencing market with its technologically advanced & innovative platforms and associated sequencing products. (emailwire.com)
Illumina also offers NGS-based RNA sequencing services which further strengthens its market position. (emailwire.com)
Genotyping-in-Thousands by sequencing (GT-seq) is a method that uses next-generation sequencing of multiplexed PCR products to generate genotypes from relatively small panels (50-500) of targeted single-nucleotide polymorphisms (SNPs) for thousands of individuals in a single Illumina HiSeq lane. (critfc.org)
We demonstrate this technique by genotyping 2068 individual steelhead trout ( Oncorhynchus mykiss ) samples with a set of 192 SNP markers in a single library sequenced in a single Illumina HiSeq lane. (critfc.org)
Illumina also offers software and informatics platforms, including cloud-based computational tools for its sequencing and array-based systems. (marketsandmarkets.com)
You can upload directly the data out of the sequencing machines (Illumina, etc). (who.int)

The objective of this document is to outline the available methods and tools for screening and sequencing patient specimens for the detection of VOC or VOI, with a focus on those that offer a rapid turn-around time so as to support rapid implementation of public health actions for COVID 19 control. (who.int)

MGmapper is a package to process raw next generation sequence data and perform reference based sequence assignment, followed by a post-processing analysis to produce reliable taxonomy annotation at species and strain level resolution. (dtu.dk)

The goal of this thesis is to investigate the information contained in the video sequences of human gait and how to extract and exploit that information in ways that facilitate human identification. (umd.edu)

The capacity and speed of modern DNA sequencing platforms has allowed sequencing to become an integral component of biomedical research and development pipelines. (labroots.com)

Bacteriophage vB_EcoM_fHy-Eco03 (fHy-Eco03 for short) was isolated from a sewage sample based on its ability to infect an Escherichia coli clinical blood culture isolate. (helsinki.fi)
Clinical utility gene card for: inherited optic neuropathies including next-generation sequencing-based approaches. (cam.ac.uk)
Diagnosis of WNV is based on clinical symptoms and antibody titers. (loinc.org)
Specifically, CDC has been evaluating suspect cases (identified either by F13L sequencing efforts or by suspicion based on clinical course) for phenotypic resistance. (cdc.gov)
PCR-based methods are frequently used worldwide and are becoming the diagnostic method of choice in various clinical settings. (medscape.com)
35.Aiba T. Recent understanding of clinical sequencing and gene-based risk stratification in inherited primary arrhythmia syndrome. (bvsalud.org)
Diagnosis is usually based on clinical findings and is confirmed by gene sequencing. (medscape.com)

In this webinar, Dr. Benjamin Delatte, Group Leader, Advanced Research Lab at Active Motif discusses a newly developed and published technique, Anchor-Based Bisulfite Sequencing (ABBS) and the advantages it has for measuring DNA methylation on a genome-wide scale in comparison to traditional bisulfite based approaches. (activemotif.com)
Our objective was to develop a big data toolset to efficiently manipulate genome-wide variants, functional annotations and coverage, together with conducting family based sequencing data analysis. (bmj.com)
We have thus developed MetaSeq, a protocol for meta-analysis of genome-wide sequencing data by multiple collaborating parties, scoring association for rare variants pooled per gene across all parties. (columbia.edu)

While each of these functions can be accomplished using existing tools, iVar contains an intersection of functionality from multiple tools that are required to call iSNVs and consensus sequences from viral sequencing data across multiple replicates. (github.com)
Clustering short sequences into operational taxonomic units (OTUs) is an initial crucial process in analyzing metagenomic data. (rsc.org)
It can be a significant challenge to process such data, especially when a large family or cohort is sequenced. (bmj.com)
Human genetics recently transitioned from GWAS to studies based on NGS data. (columbia.edu)
We tackle the challenge of tallying frequency counts of rare, sequenced alleles, for meta-analysis of sequencing data without disclosing the allele identity and counts, thereby protecting sample identity. (columbia.edu)
One such "problem areas" is the analysis of Transposon Insertion Sequencing (TIS) data. (nsf.gov)
When applied to data from an ongoing sequencing study of bipolar disorder (191 cases, 107 controls), the model identifies seven gene sets with nominal p-values (ebsco.com)
Typing procedures based on DNA sequences overcome these limitations, since sequence data may easily be exchanged and stored in databases that are accessible via the internet. (biomedcentral.com)
While word tokens are suitable for newswire, for many types of data-from social media text to product descriptions-word tokens are problematic because simple regular-expression based word tokenizers can not accurately tokenize text that is inconsistently spaced. (oracle.com)
Use with SnapGene software or the free Viewer to visualize additional data and align other sequences. (addgene.org)
Because of the sheer quantity of data involved, DNNs have been tasked with sorting through a sampling of data and predicting which base pairs need to be flipped. (nanowerk.com)
Flomics Biotech is developing a cloud-based server that enables automated data analysis of Next Generation Sequencing SARS-CoV-2 data. (who.int)

EMAILWIRE.COM , January 04, 2022 ) This report aims to provide detailed insights into the NGS-based RNA-sequencing market . (emailwire.com)

The diagnosis of acute Chagas disease, which includes congenital Chagas disease and reactivation of chronic T cruzi infection in immunosuppressed persons, is based on direct detection of the parasites. (medscape.com)
In contrast, the diagnosis of chronic infection (indeterminate or chronic symptomatic phases) is generally based on serologic testing, since the low level of circulating parasites precludes microscopic detection and limits somewhat the sensitivity of PCR assays. (medscape.com)
Even if antibiotics were previously administered, the diagnosis can be confirmed based on the detection of the polysaccharide capsule in body fluids, including serum, CSF, urine, and pleural, pericardial, and articular fluid. (medscape.com)
Methodology: This was a hospital-based, analytical cross-sectional study carried out on 226 symptomatic women wherein cervico-vaginal samples were obtained during gynaecological examination for Pap smears, HPV-DNA and genotype detection with linear array HPV strip, conducted from November 2019 to January 2021. (bvsalud.org)

A) Linear maps compare the open reading frames (ORF)1-8 of the pCD-METRO reference sequence (identical to the RT005 plasmid) with variant pCD-METRO sequences, including the ST15 isolate from the United States (top). (cdc.gov)
Isolate 1143 from Brazil was not included in this figure because no sequence information was available. (cdc.gov)
By looking at the single differences in nucleotides or SNPs in the DNA sequences of each isolate, it became obvious that two different strains of bacteria were responsible for the two disease outbreaks," University of Cambridge researcher Mark Holmes, the study's senior author, said in a statement. (genomeweb.com)
An increasing amount of species and gene identification studies rely on the use of next generation sequence analysis of either single isolate or metagenomics samples. (dtu.dk)
Complete genome sequence of Escherichia coli Antibiotic-Resistance Isolate AR Bank #0346. (usda.gov)

Researchers in Nature Medicine conducted a whole-exome sequencing study of mote than a thousand patients with premature ovarian insufficiency. (genomeweb.com)
Targeted capture and whole exome sequencing were performed in peripheral blood sample of the proband. (bvsalud.org)

iVar uses the output of samtools mpileup to call variants and generate consensus sequences. (github.com)
Unlike population-based studies, rare disease-contributing variants can be enriched in families, such as trios (parents and an offspring) or other nuclear families. (bmj.com)
New sequencing technologies now routinely detect hundreds of thousands of sequence variants in a single study, many of which are rare or even novel. (ebsco.com)

Based on application, the NGS-Based RNA-Sequencing Market is segmented into expression profiling analysis, small RNA sequencing, De Novo transcriptome assembly, and variant calling & transcriptome epigenetics. (emailwire.com)

For this target species, the algorithm computes nucleotide probabilities at each sequence position. (nih.gov)
We present a view invariant gait recognition algorithm which is based on synthesizing a side view of a person from an arbitrary monocular view. (umd.edu)
Web-based to query sequences using a k-mer (DNA substring) based algorithm. (cdc.gov)
BLAST algorithm against a set of reference sequences followed by notypes [6 ] with viruses in GI, GII, GVIII and GIX infecting humans. (cdc.gov)

The recent sequencing revolution driven by high-throughput technologies has led to rapid accumulation of 16S rRNA sequences for microbial communities. (rsc.org)
To address these challenges, we present a novel motif-based hierarchical method (namely MtHc) for clustering massive 16S rRNA sequences into OTUs with high clustering accuracy and low memory usage. (rsc.org)
Suppose all the 16S rRNA sequences can be used to construct a complete weighted network, where sequences are viewed as nodes, each pair of sequences is connected by an imaginary edge, and the distance of a pair of sequences represents the weight of the edge. (rsc.org)

This class implements part of the funcionality common to all bounded sequences, using this intermediate class instead of virtual methods on TAO_Base_Sequence give us a slight improvement of performance, but also reduces the amount of generated code in the templates. (vanderbilt.edu)
The performance and reliability of the NGS screening assay was compared with a plating efficiency-based method, and both methods identified the fHy-Eco03 gene g05 product as toxic. (helsinki.fi)
A comparison between MGmapper and Kraken at species level, shows MGmapper assigns taxonomy at species level using 84.8% of the sequence reads, compared to 70.5% for Kraken and both methods identified all species with no false positives. (dtu.dk)
Based on a thorough analysis of methods for defining sequences, Moore machines have been selected for representing complex tasks. (uni-kl.de)
This study demonstrates amplicon sequencing with GT-seq greatly reduces the cost of genotyping hundreds of targeted SNPs relative to existing methods by utilizing a simple library preparation method and massive efficiency of scale. (critfc.org)
In this part of the wiki we present our results on different sequence based prediction methods. (tu-muenchen.de)
The nonavailability of specific HLA antisera from native populations, large number of blank alleles yet to be defined and comparable low resolution of HLA alleles in SSP or SSOP technique, suggests that highly refined DNA-based methods like SBT should be used as an adjunct to HLA serology and/or low/intermediate/high resolution HLA typing in order to achieve a better transplant outcome. (who.int)
In contrast to existing methods based on machine learning, this work provides a framework to answer fundamental questions such as 'What are the bounds on how well I can recover a parameter of interest from speech? (usc.edu)

Metrics from RNA extraction and preparation procedures were collected and compared with bioinformatics sequencing summary statistics. (elsevier.com)
Finally, a decision tree model was built to learn the relationship between pre-sequencing lab metrics and qc pass/fail status as determined by bioinformatics metrics. (elsevier.com)
You should have good knowledge of sequence-based bioinformatics analysis (e.g. as taught in Bioinformatics I). Knowledge of bash or a similar scripting language is also required. (uni-tuebingen.de)

We determined the internal transcribed spacers of ribosomal DNA (ITS rDNA) sequences of these nematodes. (allenpress.com)
The occurrence of Toxocara malaysiensis in cats in China, confirmed by sequence-based analyses of ribosomal DNA. (aaem.pl)

Aspergillus viridinutans , a mold phenotypically resembling A. fumigatus , was identified by gene sequence analyses from 2 patients. (cdc.gov)

Displays both strands of base paired nucleotide sequences with annotated enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. (addgene.org)

Genotyping is performed with a simple perl script which counts amplicon-specific sequences for each allele, and allele ratios are used to determine the genotypes. (critfc.org)

The company s product portfolio includes a wide range of highly interconnected products, including sequencing, genotyping, gene expression, and molecular diagnostic products. (emailwire.com)
To develop and evaluate a web-based tool for rapid and accurate genotyping of noroviruses and Polymerase sapoviruses. (cdc.gov)
The web-based HuCaT tool supports rapid and accurate genotyping of human noroviruses and sapoviruses. (cdc.gov)

Draft genome sequences of two Bison-type and two Sheep-type strains of Mycobacterium avium subspecies paratuberculosis. (usda.gov)
Complete genome sequence of a type III ovine strain of Mycobacterium avium subspecies paratuberculosis. (usda.gov)

Elapegademase a recombinant adenosine deaminase based on bovine amino acid sequence and conjugated to PEG. (medscape.com)

Our offering includes DNA sequencing, as well as RNA and gene expression analysis and future technology for analysing proteins. (nanoporetech.com)

Yet, the field of next-generation sequencing (NGS) analysis for microorganisms (including multiple pathogens) remains fragmented, lacks accessible and reusable tools, is hindered by local computational resource limitations, and does not offer widely accepted standards. (nsf.gov)
Decentralization of Next-Generation RNA Sequencing-Based MammaPrint® and BluePrint® Kit at University Hospitals Leuven and Curie Institute Paris. (agendia.com)

Due to the common integration of automatically and manually created behaviour-based components, a formal analysis of the final behaviour network is reasonable. (uni-kl.de)
These factors will continue to propel the demand for expression profiling analysis to provide specific treatment options in the RNA Sequencing market during the forecast period. (emailwire.com)
We introduce sequence based matching, a new method that combines sequence analysis with propensity score matching procedures, allowing for a better control of career differences between men and women in statistical analyses. (uni-mannheim.de)
We conclude that sequence analysis of the two repetitive loci introduced here may be highly useful for routine typing of C. difficile . (biomedcentral.com)
The result of the sequence analysis and the restriction map shows that an open reading frame of the carp growth hormone gene contains 630 base pairs which code for a polypeptide of 210 amino acids including 22 amino acids of the signal peptide and 188 amino acids of the nature growth hormone. (nih.gov)
Academic Institutes and Research Centers- end-user segment uses NGS products for sequencing and analysis in genomics research. (marketsandmarkets.com)

Q: Can I generate my sequence listing if it contains warnings? (wipo.int)
To generate a synthetic time-gated sequence the user provides simply a single, conventional photograph of a vehicle in a desired orientation. (hw.ac.uk)
Please fill in all base score metrics in order to generate a score! (nist.gov)

Therefore, much works have focused on designing the DNA sequences to archive a reliable molecular computation and many algorithms have been proposed to obtain a set of good DNA sequences. (actapress.com)
Microlymphocytotoxicity-based tissue typing was done using commercial sera, while the molecular typing by genomic DNA based. (who.int)

Post sequencing, reads from individual samples are split into individual files using their unique combination of barcode sequences. (critfc.org)

To determine contributions of previously incarcerated persons to tuberculosis (TB) transmission in the community, we performed a healthcare facility-based cohort study of TB patients in Thailand during 2017-2020. (cdc.gov)

Hybridization between a DNA sequence and its base pairing complement is crucial to retrieve the information stored in DNA sequences and operate a computation operation in DNA computing. (actapress.com)

This webinar from seqWell will explore how transposase-based library technologies are well-suited for a number of challenging high-throughput workflows, and how innovations such as purePlex, ExpressPlex and Tagify are accelerating critical sequencing-based applications. (labroots.com)

Human identification using gait, similar to text-based speaker identification, involves different individuals performing the same task and a template-matching approach is suitable for such problems. (umd.edu)
The method is based on the planar approximation of a person that is valid when human identification at a distance is desired. (umd.edu)

We describe two tandem repeat loci, designated 'TR6' and 'TR10', which display extensive sequence variation that may be useful for sequence-based strain typing. (biomedcentral.com)

Mini-exon repeat PCR combines high sensitivity and specificity, and allows differentiation between species by sequencing of the PCR product. (eurosurveillance.org)
The CQ 1515-RX combines reliable AC power sequencing with the proven performance of the Juice Goose RX Series surge protection and filtration.This is the same unit as the CQ 1520-RX, but with a fifteen amp rating. (juicegoose.com)
The CQ 1520-RX combines reliable AC power sequencing with the proven performance of the Juice Goose RX Series surge protection and filtration. (juicegoose.com)
It uses the same Cas9 nuclease as frequently deployed in the CRISPR system but combines the enzyme with two new reagents: a guide RNA called pegRNA, which leads Cas9 to the desired spot in the genome, and a reverse transcriptase that initiates the addition of a new sequence or base into the genome. (the-scientist.com)

For example, with a human dna search, 20 is minimum matches required, based on the genome size, to filter out lower-quality results. (ucsc.edu)

Current state-of-the-art approaches for quantifying meiotic recombination rates (R) and/or identifying hotspots are mostly based on the likelihood of observed haplotypes or linkage disequilibrium (LD) patterns. (cornell.edu)

Plasmid sequence and annotations. (addgene.org)
Use text editor or plasmid mapping software to view sequence. (addgene.org)
Thank you for your patience as we work to enhance our plasmid and sequence displays. (addgene.org)
To select a portion of sequence, click one location on the plasmid and then a second location to display the sequence between the two locations. (addgene.org)

In this study, we isolated and characterized an extensively- drug resistant (XDR) NDM-5-producing Escherichia coli EC1390 from a UTI patient by using whole- genome sequencing (WGS) in combination with phenotypic assays. (bvsalud.org)

Q: Can I import FASTA files containing multiple sequences in WIPO Sequence? (wipo.int)

Their component-based nature facilitates the distributed implementation of systems, fosters reuse, and allows for early testing and integration. (uni-kl.de)

In Chapter 4, I describe a flexible, efficient, and population structure robust approach via multiple linear regression and non-parametric bootstrap based on the frequency spectra of unphased single nucleotide polymorphism sites (SNPs) and provide confidence intervals of R between adjacent pairs of SNPs. (cornell.edu)
The total limit for multiple sequence submissions is 50,000 bases or 25,000 letters. (ucsc.edu)
Because the answer might require changes to multiple base pairs, scientists have to flip some combination of them, measure the result, then choose a new combination and measure again. (nanowerk.com)
Based on multiple logistic regression, age, family history of T2DM and residence were the most important risk factors for T2DM. (who.int)

Anatomy2

Organisms4

Diseases1

Chemicals and Drugs41

Analytical, Diagnostic and Therapeutic Techniques and Equipment16

Phenomena and Processes41

Disciplines and Occupations1

Information Science6

Health Care2

Evidence on the conformation of HeLa-cell 5.8S ribosomal ribonucleic acid from the reaction of specific cytidine residues with sodium bisulphite. (1/178859)

Marker effects on reversion of T4rII mutants. (2/178859)

Characterization of an amphioxus paired box gene, AmphiPax2/5/8: developmental expression patterns in optic support cells, nephridium, thyroid-like structures and pharyngeal gill slits, but not in the midbrain-hindbrain boundary region. (3/178859)

Regulation of body length and male tail ray pattern formation of Caenorhabditis elegans by a member of TGF-beta family. (4/178859)

Activation of systemic acquired silencing by localised introduction of DNA. (5/178859)

Molecular cloning and epitope analysis of the peanut allergen Ara h 3. (6/178859)

TIF1gamma, a novel member of the transcriptional intermediary factor 1 family. (7/178859)

Telomerase reverse transcriptase gene is a direct target of c-Myc but is not functionally equivalent in cellular transformation. (8/178859)

Base Sequence

Base Pairing

Nucleic Acid Conformation

DNA

Base Composition

Nucleic Acid Denaturation

Molecular Sequence Data

Nucleic Acid Renaturation

Oligonucleotides

Nucleic Acid Hybridization

Oligodeoxyribonucleotides

Polydeoxyribonucleotides

Aminacrine

DNA, Viral

DNA, Bacterial

RNA, Ribosomal, 18S

Escherichia coli

Poly dA-dT

Cloning, Molecular

RNA, Ribosomal

Skull Base

Guanine

Sequence Homology, Nucleic Acid

DNA, Circular

Amino Acid Sequence

Genes

Saccharomyces

Schiff Bases

Intercalating Agents

Plasmids

Models, Molecular

RNA

Adenine

Saccharomycetales

DNA Restriction Enzymes

Mutation

Repetitive Sequences, Nucleic Acid

RNA, Viral

Transcription, Genetic

DNA, Single-Stranded

Deoxyribonucleotides

Species Specificity

Thermodynamics

Poly A

Tritium

Coliphages

RNA, Messenger

Kinetics

Oligoribonucleotides

Hybridization, Genetic

Temperature

Chemistry

Genes, Bacterial

RNA, Bacterial

Chemical Phenomena

Nucleotides

RNA, Fungal

Binding Sites

Genes, Viral

Restriction Mapping

Hot Temperature

Transformation, Genetic

Magnetic Resonance Spectroscopy

Templates, Genetic

Molecular Weight

Centrifugation, Density Gradient

DNA, Recombinant

Ribonucleases

Endonucleases

Phylogeny

Substrate Specificity

DNA Probes

Cell Line

Structure-Activity Relationship

DNA Replication

Polymerase Chain Reaction

Skull Base Neoplasms

Promoter Regions, Genetic

DNA Primers

Models, Chemical