Bayes Theorem
A theorem in probability theory named for Thomas Bayes (1702-1761). In epidemiology, it is used to obtain the probability of disease in a group of people with some characteristic on the basis of the overall rate of that disease and of the likelihood of that characteristic in healthy and diseased individuals. The most familiar application is in clinical decision analysis where it is used for estimating the probability of a particular diagnosis given the appearance of some symptoms or test result.
Sequence Analysis, DNA
Evolution, Molecular
Models, Genetic
Software
Molecular Sequence Data
Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.
Sequence Alignment
The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.
Likelihood Functions
Base Sequence
Fossils
Algorithms
Markov Chains
RNA, Ribosomal, 18S
Biological Evolution
Computational Biology
A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.
DNA, Mitochondrial
DNA, Ribosomal
Monte Carlo Method
In statistics, a technique for numerically approximating the solution of a mathematical problem by studying the distribution of some random variable, often generated by a computer. The name alludes to the randomness characteristic of the games of chance played at the gambling casinos in Monte Carlo. (From Random House Unabridged Dictionary, 2d ed, 1993)
Amino Acid Sequence
Computer Simulation
Molecular Sequence Annotation
High-Throughput Nucleotide Sequencing
Techniques of nucleotide sequence analysis that increase the range, complexity, sensitivity, and accuracy of results by greatly increasing the scale of operations and thus the number of nucleotides, and the number of copies of each nucleotide sequenced. The sequencing may be done by analysis of the synthesis or ligation products, hybridization to preexisting sequences, etc.
Genome
Sequence Homology, Nucleic Acid
Species Specificity
The restriction of a characteristic behavior, anatomical structure or physical system, such as immune response; metabolic response, or gene or gene variant to the members of one species. It refers to that property which differentiates one species from another but it is also used for phylogenetic levels higher or lower than the species.
DNA, Ribosomal Spacer
Databases, Nucleic Acid
Expressed Sequence Tags
RNA, Ribosomal, 16S
Cloning, Molecular
Classification
Sequence Analysis
Internet
RNA, Ribosomal, 28S
Phylogeography
Sequence Analysis, Protein
Genetics, Population
Polymerase Chain Reaction
In vitro method for producing large amounts of specific DNA or RNA fragments of defined length and sequence from small amounts of short oligonucleotide flanking sequences (primers). The essential steps include thermal denaturation of the double-stranded target molecules, annealing of the primers to their complementary sequences, and extension of the annealed primers by enzymatic synthesis with DNA polymerase. The reaction is efficient, specific, and extremely sensitive. Uses for the reaction include disease diagnosis, detection of difficult-to-isolate pathogens, mutation analysis, genetic testing, DNA sequencing, and analyzing evolutionary relationships.
Chromosome Mapping
DNA
A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).
Genome, Human
Sequence Homology, Amino Acid
Databases, Factual
Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.
User-Computer Interface
Gene Library
Cluster Analysis
A set of statistical methods used to group variables or observations into strongly inter-related subgroups. In epidemiology, it may be used to analyze a closely grouped series of events or cases of disease or other health-related phenomenon with well-defined distribution patterns in relation to time or place or both.
Exome
INDEL Mutation
A mutation named with the blend of insertion and deletion. It refers to a length difference between two ALLELES where it is unknowable if the difference was originally caused by a SEQUENCE INSERTION or by a SEQUENCE DELETION. If the number of nucleotides in the insertion/deletion is not divisible by three, and it occurs in a protein coding region, it is also a FRAMESHIFT MUTATION.
Genetic Speciation
Human Genome Project
Contig Mapping
Sequence Analysis, RNA
Haplotypes
RNA, Ribosomal, 5.8S
Genes
Information Storage and Retrieval
Database Management Systems
Open Reading Frames
Geography
Genes, rRNA
DNA Primers
Polymorphism, Single Nucleotide
DNA, Complementary
Genes, Mitochondrial
Multigene Family
A set of genes descended by duplication and variation from some ancestral gene. Such genes may be clustered together on the same chromosome or dispersed on different chromosomes. Examples of multigene families include those that encode the hemoglobins, immunoglobulins, histocompatibility antigens, actins, tubulins, keratins, collagens, heat shock proteins, salivary glue proteins, chorion proteins, cuticle proteins, yolk proteins, and phaseolins, as well as histones, ribosomal RNA, and transfer RNA genes. The latter three are examples of reiterated genes, where hundreds of identical genes are present in a tandem array. (King & Stanfield, A Dictionary of Genetics, 4th ed)
Data Compression
Information application based on a variety of coding methods to minimize the amount of data to be stored, retrieved, or transmitted. Data compression can be applied to various forms of data, such as images and signals. It is used to reduce costs and increase efficiency in the maintenance of large volumes of data.
Bacteria
One of the three domains of life (the others being Eukarya and ARCHAEA), also called Eubacteria. They are unicellular prokaryotic microorganisms which generally possess rigid cell walls, multiply by cell division, and exhibit three principal forms: round or coccal, rodlike or bacillary, and spiral or spirochetal. Bacteria can be classified by their response to OXYGEN: aerobic, anaerobic, or facultatively anaerobic; by the mode by which they obtain their energy: chemotrophy (via chemical reaction) or PHOTOTROPHY (via light reaction); for chemotrophs by their source of chemical energy: CHEMOLITHOTROPHY (from inorganic compounds) or chemoorganotrophy (from organic compounds); and by their source for CARBON; NITROGEN; etc.; HETEROTROPHY (from organic sources) or AUTOTROPHY (from CARBON DIOXIDE). They can also be classified by whether or not they stain (based on the structure of their CELL WALLS) with CRYSTAL VIOLET dye: gram-negative or gram-positive.
Ascomycota
Proteins
Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.
Genotype
Mutation
Sequence Homology
Selection, Genetic
Databases, Protein
Angiosperms
Members of the group of vascular plants which bear flowers. They are differentiated from GYMNOSPERMS by their production of seeds within a closed chamber (OVARY, PLANT). The Angiosperms division is composed of two classes, the monocotyledons (Liliopsida) and dicotyledons (Magnoliopsida). Angiosperms represent approximately 80% of all known living plants.
Codon
A set of three nucleotides in a protein coding sequence that specifies individual amino acids or a termination signal (CODON, TERMINATOR). Most codons are universal, but some organisms do not produce the transfer RNAs (RNA, TRANSFER) complementary to all codons. These codons are referred to as unassigned codons (CODONS, NONSENSE).
DNA, Intergenic
RNA, Bacterial
Plastids
Genetic Markers
RNA, Ribosomal
The most abundant form of RNA. Together with proteins, it forms the ribosomes, playing a structural role and also a role in ribosomal binding of mRNA and tRNAs. Individual chains are conventionally designated by their sedimentation coefficients. In eukaryotes, four large chains exist, synthesized in the nucleolus and constituting about 50% of the ribosome. (Dorland, 28th ed)
Conserved Sequence
Gene Flow
Microsatellite Repeats
Restriction Mapping
Plants
Multicellular, eukaryotic life forms of kingdom Plantae (sensu lato), comprising the VIRIDIPLANTAE; RHODOPHYTA; and GLAUCOPHYTA; all of which acquired chloroplasts by direct endosymbiosis of CYANOBACTERIA. They are characterized by a mainly photosynthetic mode of nutrition; essentially unlimited growth at localized regions of cell divisions (MERISTEMS); cellulose within cells providing rigidity; the absence of organs of locomotion; absence of nervous and sensory systems; and an alternation of haploid and diploid generations.
Metagenome
Computer Graphics
Acari
Recombination, Genetic
Polymorphism, Genetic
The regular and simultaneous occurrence in a single interbreeding population of two or more discontinuous genotypes. The concept includes differences in genotypes ranging in size from a single nucleotide site (POLYMORPHISM, SINGLE NUCLEOTIDE) to large nucleotide sequences visible at a chromosomal level.
DNA Restriction Enzymes
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.
Genomic Library
Models, Statistical
Chromosomes, Artificial, Bacterial
DNA Barcoding, Taxonomic
Information Systems
Multilocus Sequence Typing
Biodiversity
CD-ROM
Nucleic Acid Hybridization
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)
Repetitive Sequences, Nucleic Acid
Sequences of DNA or RNA that occur in multiple copies. There are several types: INTERSPERSED REPETITIVE SEQUENCES are copies of transposable elements (DNA TRANSPOSABLE ELEMENTS or RETROELEMENTS) dispersed throughout the genome. TERMINAL REPEAT SEQUENCES flank both ends of another sequence, for example, the long terminal repeats (LTRs) on RETROVIRUSES. Variations may be direct repeats, those occurring in the same direction, or inverted repeats, those opposite to each other in direction. TANDEM REPEAT SEQUENCES are copies which lie adjacent to each other, direct or inverted (INVERTED REPEAT SEQUENCES).
Lemur
Alleles
Escherichia coli
A species of gram-negative, facultatively anaerobic, rod-shaped bacteria (GRAM-NEGATIVE FACULTATIVELY ANAEROBIC RODS) commonly found in the lower part of the intestine of warm-blooded animals. It is usually nonpathogenic, but some strains are known to produce DIARRHEA and pyogenic infections. Pathogenic strains (virotypes) are classified by their specific pathogenic mechanisms such as toxins (ENTEROTOXIGENIC ESCHERICHIA COLI), etc.
Gene Expression Profiling
Sequence Tagged Sites
Short tracts of DNA sequence that are used as landmarks in GENOME mapping. In most instances, 200 to 500 base pairs of sequence define a Sequence Tagged Site (STS) that is operationally unique in the human genome (i.e., can be specifically detected by the polymerase chain reaction in the presence of all other genomic sequences). The overwhelming advantage of STSs over mapping landmarks defined in other ways is that the means of testing for the presence of a particular STS can be completely described as information in a database.
Physical Chromosome Mapping
Mapping of the linear order of genes on a chromosome with units indicating their distances by using methods other than genetic recombination. These methods include nucleotide sequencing, overlapping deletions in polytene chromosomes, and electron micrography of heteroduplex DNA. (From King & Stansfield, A Dictionary of Genetics, 5th ed)
Molecular Epidemiology
Basidiomycota
Phenotype
Fruiting Bodies, Fungal
Mutation Rate
Novel regulation of the homeotic gene Scr associated with a crustacean leg-to-maxilliped appendage transformation. (1/277092)
Homeotic genes are known to be involved in patterning morphological structures along the antero-posterior axis of insects and vertebrates. Because of their important roles in development, changes in the function and expression patterns of homeotic genes may have played a major role in the evolution of different body plans. For example, it has been proposed that during the evolution of several crustacean lineages, changes in the expression patterns of the homeotic genes Ultrabithorax and abdominal-A have played a role in transformation of the anterior thoracic appendages into mouthparts termed maxillipeds. This homeotic-like transformation is recapitulated at the late stages of the direct embryonic development of the crustacean Porcellio scaber (Oniscidea, Isopoda). Interestingly, this morphological change is associated with apparent novelties both in the transcriptional and post-transcriptional regulation of the Porcellio scaber ortholog of the Drosophila homeotic gene, Sex combs reduced (Scr). Specifically, we find that Scr mRNA is present in the second maxillary segment and the first pair of thoracic legs (T1) in early embryos, whereas protein accumulates only in the second maxillae. In later stages, however, high levels of SCR appear in the T1 legs, which correlates temporally with the transformation of these appendages into maxillipeds. Our observations provide further insight into the process of the homeotic leg-to-maxilliped transformation in the evolution of crustaceans and suggest a novel regulatory mechanism for this process in this group of arthropods. (+info)The Drosophila kismet gene is related to chromatin-remodeling factors and is required for both segmentation and segment identity. (2/277092)
The Drosophila kismet gene was identified in a screen for dominant suppressors of Polycomb, a repressor of homeotic genes. Here we show that kismet mutations suppress the Polycomb mutant phenotype by blocking the ectopic transcription of homeotic genes. Loss of zygotic kismet function causes homeotic transformations similar to those associated with loss-of-function mutations in the homeotic genes Sex combs reduced and Abdominal-B. kismet is also required for proper larval body segmentation. Loss of maternal kismet function causes segmentation defects similar to those caused by mutations in the pair-rule gene even-skipped. The kismet gene encodes several large nuclear proteins that are ubiquitously expressed along the anterior-posterior axis. The Kismet proteins contain a domain conserved in the trithorax group protein Brahma and related chromatin-remodeling factors, providing further evidence that alterations in chromatin structure are required to maintain the spatially restricted patterns of homeotic gene transcription. (+info)The homeobox gene Pitx2: mediator of asymmetric left-right signaling in vertebrate heart and gut looping. (3/277092)
Left-right asymmetry in vertebrates is controlled by activities emanating from the left lateral plate. How these signals get transmitted to the forming organs is not known. A candidate mediator in mouse, frog and zebrafish embryos is the homeobox gene Pitx2. It is asymmetrically expressed in the left lateral plate mesoderm, tubular heart and early gut tube. Localized Pitx2 expression continues when these organs undergo asymmetric looping morphogenesis. Ectopic expression of Xnr1 in the right lateral plate induces Pitx2 transcription in Xenopus. Misexpression of Pitx2 affects situs and morphology of organs. These experiments suggest a role for Pitx2 in promoting looping of the linear heart and gut. (+info)Mrj encodes a DnaJ-related co-chaperone that is essential for murine placental development. (4/277092)
We have identified a novel gene in a gene trap screen that encodes a protein related to the DnaJ co-chaperone in E. coli. The gene, named Mrj (mammalian relative of DnaJ) was expressed throughout development in both the embryo and placenta. Within the placenta, expression was particularly high in trophoblast giant cells but moderate levels were also observed in trophoblast cells of the chorion at embryonic day 8.5, and later in the labyrinth which arises from the attachment of the chorion to the allantois (a process called chorioallantoic fusion). Insertion of the ROSAbetageo gene trap vector into the Mrj gene created a null allele. Homozygous Mrj mutants died at mid-gestation due to a failure of chorioallantoic fusion at embryonic day 8.5, which precluded formation of the mature placenta. At embryonic day 8.5, the chorion in mutants was morphologically normal and expressed the cell adhesion molecule beta4 integrin that is known to be required for chorioallantoic fusion. However, expression of the chorionic trophoblast-specific transcription factor genes Err2 and Gcm1 was significantly reduced. The mutants showed no abnormal phenotypes in other trophoblast cell types or in the embryo proper. This study indicates a previously unsuspected role for chaperone proteins in placental development and represents the first genetic analysis of DnaJ-related protein function in higher eukaryotes. Based on a survey of EST databases representing different mouse tissues and embryonic stages, there are 40 or more DnaJ-related genes in mammals. In addition to Mrj, at least two of these genes are also expressed in the developing mouse placenta. The specificity of the developmental defect in Mrj mutants suggests that each of these genes may have unique tissue and cellular activities. (+info)A Drosophila doublesex-related gene, terra, is involved in somitogenesis in vertebrates. (5/277092)
The Drosophila doublesex (dsx) gene encodes a transcription factor that mediates sex determination. We describe the characterization of a novel zebrafish zinc-finger gene, terra, which contains a DNA binding domain similar to that of the Drosophila dsx gene. However, unlike dsx, terra is transiently expressed in the presomitic mesoderm and newly formed somites. Expression of terra in presomitic mesoderm is restricted to cells that lack expression of MyoD. In vivo, terra expression is reduced by hedgehog but enhanced by BMP signals. Overexpression of terra induces rapid apoptosis both in vitro and in vivo, suggesting that a tight regulation of terra expression is required during embryogenesis. Terra has both human and mouse homologs and is specifically expressed in mouse somites. Taken together, our findings suggest that terra is a highly conserved protein that plays specific roles in early somitogenesis of vertebrates. (+info)Requirement of a novel gene, Xin, in cardiac morphogenesis. (6/277092)
A novel gene, Xin, from chick (cXin) and mouse (mXin) embryonic hearts, may be required for cardiac morphogenesis and looping. Both cloned cDNAs have a single open reading frame, encoding proteins with 2,562 and 1,677 amino acids for cXin and mXin, respectively. The derived amino acid sequences share 46% similarity. The overall domain structures of the predicted cXin and mXin proteins, including proline-rich regions, 16 amino acid repeats, DNA-binding domains, SH3-binding motifs and nuclear localization signals, are highly conserved. Northern blot analyses detect a single message of 8.9 and 5.8 kilo base (kb) from both cardiac and skeletal muscle of chick and mouse, respectively. In situ hybridization reveals that the cXin gene is specifically expressed in cardiac progenitor cells of chick embryos as early as stage 8, prior to heart tube formation. cXin continues to be expressed in the myocardium of developing hearts. By stage 15, cXin expression is also detected in the myotomes of developing somites. Immunofluorescence microscopy reveals that the mXin protein is colocalized with N-cadherin and connexin-43 in the intercalated discs of adult mouse hearts. Incubation of stage 6 chick embryos with cXin antisense oligonucleotides results in abnormal cardiac morphogenesis and an alteration of cardiac looping. The myocardium of the affected hearts becomes thickened and tends to form multiple invaginations into the heart cavity. This abnormal cellular process may account in part for the abnormal looping. cXin expression can be induced by bone morphogenetic protein (BMP) in explants of anterior medial mesoendoderm from stage 6 chick embryos, a tissue that is normally non-cardiogenic. This induction occurs following the BMP-mediated induction of two cardiac-restricted transcription factors, Nkx2.5 and MEF2C. Furthermore, either MEF2C or Nkx2.5 can transactivate a luciferase reporter driven by the mXin promoter in mouse fibroblasts. These results suggest that Xin may participate in a BMP-Nkx2.5-MEF2C pathway to control cardiac morphogenesis and looping. (+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. (7/277092)
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)Mechanisms of GDF-5 action during skeletal development. (8/277092)
Mutations in GDF-5, a member of the TGF-beta superfamily, result in the autosomal recessive syndromes brachypod (bp) in mice and Hunter-Thompson and Grebe-type chondrodysplasias in humans. These syndromes are all characterised by the shortening of the appendicular skeleton and loss or abnormal development of some joints. To investigate how GDF-5 controls skeletogenesis, we overexpressed GDF-5 during chick limb development using the retrovirus, RCASBP. This resulted in up to a 37.5% increase in length of the skeletal elements, which was predominantly due to an increase in the number of chondrocytes. By injecting virus at different stages of development, we show that GDF-5 can increase both the size of the early cartilage condensation and the later developing skeletal element. Using in vitro micromass cultures as a model system to study the early steps of chondrogenesis, we show that GDF-5 increases chondrogenesis in a dose-dependent manner. We did not detect changes in proliferation. However, cell suspension cultures showed that GDF-5 might act at these stages by increasing cell adhesion, a critical determinant of early chondrogenesis. In contrast, pulse labelling experiments of GDF-5-infected limbs showed that at later stages of skeletal development GDF-5 can increase proliferation of chondrocytes. Thus, here we show two mechanisms of how GDF-5 may control different stages of skeletogenesis. Finally, our data show that levels of GDF-5 expression/activity are important in controlling the size of skeletal elements and provides a possible explanation for the variation in the severity of skeletal defects resulting from mutations in GDF-5. (+info)
Miocnus
2019) based on molecular sequence data. Sites and ages of specimen (complete list): Casimba, Cuba ~1.8 Mya-11,000 years ago. ...
Blackish deer mouse
2000). "Phylogeography of Peromyscus furvus (Rodentia; Muridae) based on cytochrome b sequence data". Molecular Ecology. 9 (12 ... v t e (Articles with short description, Short description is different from Wikidata, IUCN Red List data deficient species, ...
Near passerine
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... However, molecular data does not support the traditional arrangement; it is now clear that "near passerines" and "higher ... "An unbiased molecular approach using 3′-UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution. 38 ... Johansson, Ulf S. & Ericson, Per G. P. (June 2003). "Molecular support for a sister group relationship between Pici and ...
Hamerkop
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "An unbiased molecular approach using 3′-UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution. 38 ...
New World vulture
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-7. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... This was criticized, and an early DNA sequence study was based on erroneous data and subsequently retracted. There was then an ... They were especially common in the gut with Clostridia DNA sequence counts between 26% and 85% relative to total sequence ... ISBN 0-300-04969-2 Sibley, Charles G., and Jon E. Ahlquist (1991) Phylogeny and Classification of Birds: A Study in Molecular ...
Turkey vulture
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 1-5. doi:10.1098/rsbl.2006.0523. PMC 1834003. PMID ... 1991). Phylogeny and Classification of Birds: A Study in Molecular Evolution Archived 2020-10-13 at the Wayback Machine. Yale ... Molecular Phylogenetics and Evolution. 37 (2): 327-346. doi:10.1016/j.ympev.2005.04.010. ISSN 1055-7903. PMID 15925523. ... and classification of the Accipitridae based on DNA sequences of the RAG-1 exon". Journal of Avian Biology. 38 (5): 587-602. ...
Columbaves
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "An unbiased molecular approach using 3'UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution. 38 ... sequenced 3-prime untranslated region (3'UTR) from 429 species and 379 genera of birds found support of Columbaves in their ... A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing. Nature (2015). doi:10.1038/nature15697 ...
Jacamar
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "Molecular support for a sister group relationship between Pici and Galbulae (Piciformes sensu Wetmore 1960" (PDF). Journal of ...
Scopus (bird)
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ...
Aequorlitornithes
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... 22 October 2015). "A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing". Nature. 526 (7574 ...
Eurypygimorphae
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... More recent molecular studies support their grouping together in Eurypygimorphae, which is usually recovered as the sister ... 2015) A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing. Nature 526, 569-573. Suh, ...
Columbimorphae
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... Molecular Phylogenetics and Evolution. 56 (2): 698-706. doi:10.1016/j.ympev.2010.04.016. PMID 20399870. v t e (Articles with ... using targeted next-generation DNA sequencing". Nature. 526 (7574): 569-573. Bibcode:2015Natur.526..569P. doi:10.1038/ ...
Phaethoquornithes
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "An unbiased molecular approach using 3'UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution: 143 ... Molecular Biology and Evolution. 23 (#6): 1144-1155. CiteSeerX 10.1.1.113.4549. doi:10.1093/molbev/msj124. PMID 16533822. ...
Grebe
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... molecular and paleontological data. Many species are monogamous and are known for their courtship displays, with the pair ... Molecular studies such as DNA-DNA hybridization (Sibley & Ahlquist, 1990)[full citation needed] and sequence analyses fail to ... Recent molecular studies have suggested a relation with flamingos while morphological evidence also strongly supports a ...
Galbuli
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... Johansson, Ulf S.; Ericson, Per G.P. (2003). "Molecular support for a sister group relationship between Pici and Galbulae ( ... Witt, C.C. (2004), Rates of Molecular Evolution and their Application to Neotropical Avian Biogeography, Ph.D. dissertation, ...
Columbea
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ...
Puffbird
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... Molecular investigation of the Bucconidae in 2004 indicated that the nunlets (genus Nonnula) diverged from the common ancestor ... Johansson, Ulf S. & Ericson, Per G.P. (2003). "Molecular support for a sister group relationship between Pici and Galbulae ( ... Witt, C.C. (2004), Rates of Molecular Evolution and their Application to Neotropical Avian Biogeography, Ph.D. dissertation, ...
Pici (taxon)
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... Johansson, Ulf S. & Ericson, Per G.P. (2003). "Molecular support for a sister group relationship between Pici and Galbulae ( ...
Otidimorphae
... integration of molecular sequence data and fossils". Biology Letters. rsbl.royalsocietypublishing.org. 2 (4): 543-547. doi: ...
Vampyrella
Molecular sequence data exist for two families: Vampyrellidae and Leptophyridae. Frequently, Vampyrella is the only genus ...
Mirandornithes
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "An unbiased molecular approach using 3'UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution: 143 ... Molecular Phylogenetics and Evolution. 30 (1): 140-151. doi:10.1016/S1055-7903(03)00159-3. PMID 15022765. Mayr, G. (February ...
White-bellied go-away-bird
6 July 2006). "Diversification of Neoaves: integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547 ... "LC White-bellied Go-away-bird Criniferoides leucogaster". BirdLife International Data Zone. 2019. Dale A. Zimmerman, Birds of ...
Tadarida
Molecular sequence data indicate Tadarida is not a monophyletic taxon. The closest relative of Tadarida aegyptiaca of Africa ... "Toward a Molecular Phylogeny for the Molossidae (Chiroptera) of the Afro-Malagasy Region". Acta Chiropterologica. 13 (1): 1-16 ...
Pelecaniformes
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "Why do phylogenomic data sets yield conflicting trees? Data type influences the avian tree of life more than taxon sampling". ... "An unbiased molecular approach using 3′-UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution. 38 ... "An unbiased molecular approach using 3'UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution. 38 ...
Cretaceous-Paleogene extinction event
December 2006). "Diversification of Neoaves: integration of molecular sequence data and fossils". Biol. Lett. 2 (4): 543-7. doi ... Based on molecular sequencing and fossil dating, many species of birds (the Neoaves group in particular) appeared to radiate ... A highly informative sequence of dinosaur-bearing rocks from the K-Pg boundary is found in western North America, particularly ... In North America, the data suggests massive devastation and mass extinction of plants at the K-Pg boundary sections, although ...
Psittacopasserae
... integration of molecular sequence data and fossils". Biology Letters. 2 (4): 543-547. doi:10.1098/rsbl.2006.0523. PMC 1834003. ... "An unbiased molecular approach using 3'UTRs resolves the avian family-level tree of life". Molecular Biology and Evolution: 143 ... The group was proposed following an alignment of nuclear intron sequences by Shannon Hackett et al. in 2008, it was formally ... However, the technique requires very extensive genomic data - in the 2011 paper, approximately 200,000 retroposon-containing ...
Coryphagrion grandis
Evidence from nuclear and mitochondrial sequence data". Molecular Phylogenetics and Evolution. 42 (2): 339-346. doi:10.1016/j. ...
Damselfly
Evidence from Nuclear and Mitochondrial Sequence Data". Molecular Phylogenetics and Evolution. 42 (2): 339-46. doi:10.1016/j. ... Molecular analysis in 2013 confirms that most of the traditional families are monophyletic, but shows that the Amphipterygidae ... Media related to Zygoptera at Wikimedia Commons Data related to Zygoptera at Wikispecies Tree of Life: Odonata Dragonflies and ... a comprehensive molecular phylogeny of Zygoptera (Odonata)". Systematic Entomology. 39 (1): 68-96. doi:10.1111/syen.12035. ...
Pseudostigmatidae
Evidence from Nuclear and Mitochondrial Sequence Data". Molecular Phylogenetics and Evolution. 42 (2): 339-46. doi:10.1016/j. ... In 2006, molecular phylogenetic analysis confirmed that the African damselfly Coryphagrion grandis, previously often classified ...
Lesser yellow-headed vulture
... integration of molecular sequence data and fossils" (PDF). Biology Letters. 2 (4): 543-7. doi:10.1098/rsbl.2006.0523. PMC ... ISBN 0-19-854012-4. Sibley, Charles G.; Jon E. Ahlquist (1991). Phylogeny and Classification of Birds: A Study in Molecular ... Phylogeny and Classification of Birds: A Study in Molecular Evolution. Yale University Press. ISBN 0-300-04085-7. Accessed 2007 ...
Turquoise cichlid
... based on sequences of the cytochrome b gene". Molecular Phylogenetics and Evolution. 43 (1): 91-110. Pilack, M. (2020). " ... genetic data is lacking for other populations). Adults have an iridescent light-spotted pattern, but the extent and color hue ...
Phyllanthaceae
"Molecular phylogenetic analysis of Euphorbiaceae sensu stricto based on plastid and nuclear DNA sequences and ovule and seed ... "Delimitation of Sauropus (Phyllanthaceae) Based on Plastid matK and Nuclear Ribosomal ITS DNA Sequence Data." Annals of Botany ... "Molecular phylogenetics of Phyllanthaceae: evidence from plastid matK and nuclear PHYC sequences" (PDF). American Journal of ... 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 ...
Geogenanthus poeppigii
... based on molecular and morphological data. Aliso, 22(1), 520-526. Hardy CR .2001. Systematics of Cochliostema, Geogenanthus, ... An analysis of DNA sequences indicate Geogenanthus is closely related to the genus Plowmanianthus followed by Cochliostema. ... A cladistic analysis of rbcL sequences and morphology. Systematic Botany, 28(2), 270-292. Stevens, P. F. (2001 onwards). ... A cladistic analysis of rbcL sequences and morphology. Systematic Botany, 28(2), 270-292. Wade, D. J., Evans, T. M., & Faden, R ...
New Delhi metallo-beta-lactamase 1
August 2010). "Emergence of a new antibiotic resistance mechanism in India, Pakistan, and the UK: a molecular, biological, and ... but there are few data arising from India to suggest how widespread it is". Its exact geographical origin, however, has not ... and a novel erythromycin esterase gene carried on a unique genetic structure in Klebsiella pneumoniae sequence type 14 from ...
Norovirus
2016) Molecular ecolution of the capsid gene in human norovirus genogroup II. Sci Rep 6:29400 Ozaki K, Matsushima Y, Nagasawa K ... The cloning and sequencing of the Norwalk virus genome showed that these viruses have a genomic organization consistent with ... Caliciviridae Archived 2019-09-13 at the Wayback Machine 3D macromolecular structures of Noroviruses from the EM Data Bank(EMDB ... fragment-based molecular docking and binding free energy calculations". Carbohydr. Res. 378: 133-8. doi:10.1016/j.carres. ...
Baum-Welch algorithm
Bishop, Martin J.; Thompson, Elizabeth A. (20 July 1986). "Maximum likelihood alignment of DNA sequences". Journal of Molecular ... In data security an observer would like to extract information from a data stream without knowing all the parameters of the ... An observation sequence is given by Y = ( Y 1 = y 1 , Y 2 = y 2 , … , Y T = y T ) {\displaystyle Y=(Y_{1}=y_{1},Y_{2}=y_{2},\ ... This is equivalent to the number of times state i is observed in the sequence from t = 1 to t = T − 1. b i ∗ ( v k ) = ∑ t = 1 ...
Prokaryotic DNA replication
Journal of Molecular Biology. 106 (4): 963-81. doi:10.1016/0022-2836(76)90346-6. PMID 789903. Drake JW (1970) The Molecular ... These sequences allow the two replication forks to pass through in only one direction, but not the other. DNA replication ... A few other mechanisms in E. coli that variously regulate initiation are DDAH (datA-Dependent DnaA Hydrolysis, which is also ... In E. coli, the direction for orisome assembly are built into a short stretch of nucleotide sequence called as origin of ...
Metabolism
Cooper GM (2000). "The Molecular Composition of Cells". The Cell: A Molecular Approach (2nd ed.). Archived from the original on ... Each different protein has a unique sequence of amino acid residues: this is its primary structure. Just as the letters of the ... However, it is now possible to use this genomic data to reconstruct complete networks of biochemical reactions and produce more ... Alberts B, Johnson A, Lewis J, Raff M, Roberts K, Walter P (2002). "How Cells Obtain Energy from Food". Molecular Biology of ...
Genomic imprinting
Methods in Molecular Biology. Vol. 2093. New York, NY: Springer US. pp. 173-201. doi:10.1007/978-1-0716-0179-2_13. ISBN 978-1- ... Beechey C, Cattanach BM, Lake A, Peters J (2008). "Mouse Imprinting Data and References". MRC Harwell. Archived from the ... It is an epigenetic process that involves DNA methylation and histone methylation without altering the genetic sequence. These ... However, our understanding of the molecular mechanisms behind genomic imprinting show that it is the maternal genome that ...
VectorBase
2009). "VectorBase: a data resource for invertebrate vector genomics". Nucleic Acids Research. 37 (Database issue): D583-7. doi ... 2007). "Genome sequence of Aedes aegypti, a major arbovirus vector". Science. 316 (5832): 1718-23. Bibcode:2007Sci...316.1718N ... 2008). "Anatomical ontologies of mosquitoes and ticks, and their web browsers in VectorBase". Insect Molecular Biology. 17 (1 ... 2002). "The genome sequence of the malaria mosquito Anopheles gambiae". Science. 298 (5591): 129-49. Bibcode:2002Sci...298.. ...
Iotyrris devoizei
... using RAD sequencing in an integrative taxonomy framework. Molecular Ecology. 27(22): 4591-4611 v t e (Articles with short ... a test of the value of shell and radula characters using molecular data. Zoological Science, 25(11): 1156-1170 Abdelkrim, J.; ... "Occurrence data". Retrieved 4 June 2015. Wikimedia Commons has media related to Iotyrris devoizei. MNHN, Paris: specimen Kantor ...
Euglena gracilis
"Phylogenetic Relationships of Selected Euglenoid Genera Based on Morphological and Molecular Data". Journal of Phycology. 33 (3 ... The transcriptome of E. gracilis was recently sequenced, providing information about all of the genes that the organism is ... A morphological and molecular study of the Euglenozoa put E. gracilis in close kinship with the species Khawkinea quartana, ... Molecular BioSystems. 11 (10): 2808-21. doi:10.1039/C5MB00319A. PMID 26289754. Media related to Euglena gracilis at Wikimedia ...
Genome size
Although sequenced genome data are practically biased toward small genomes, which may compromise the accuracy of the ... With the emergence of various molecular techniques in the past 50 years, the genome sizes of thousands of eukaryotes have been ... Based on currently available completely sequenced genome data (as of April 2009), log-transformed gene number forms a linear ... The loss of large section of genomes could in fact lead to a loss in promotor sequences. This could in fact pushed the ...
Keith A. Crandall
... analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. ... He then joined the Departments of Integrative Biology and Microbiology and Molecular Biology at Brigham Young University as an ... His lab also focuses on the development and testing of methods for DNA sequence analysis, including leading methods in ... Louis in 1993, for research supervised by Alan Templeton on the molecular systematics and evolutionary biology in the crayfish ...
Sparassis
from Thailand is described using morphological and molecular data" (PDF). Mycologia. 96 (5): 1010-4. doi:10.2307/3762085. JSTOR ... In order to study its medicinal value better, the genomic sequence of S. crispa was published in October 2018. The dry weight ... "A new Sparassis species from Spain described using morphological and molecular data" (PDF). Mycological Research. 110 (Pt 10): ... Yamamoto (2007). "Antitumor activities of low molecular weight fraction derived from the cultured fruit body of Sparassis ...
Salvia
Walker and Sytsma (2007) clarified this parallel evolution in a later paper combining molecular and morphological data to prove ... Through DNA sequencing, Salvia was shown to not be monophyletic but to consist of three separate clades (Salvia clades I-III) ... Molecular Phylogenetic Evidence for Multiple Origins of the Staminal Lever". Annals of Botany. 100 (2): 375-91. doi:10.1093/aob ...
Dryandra ser. Aphragma
Diplophragma (1 species) Since 1998, Austin Mast has been publishing results of ongoing cladistic analyses of DNA sequence data ... Mast, Austin R. (1998). "Molecular systematics of subtribe Banksiinae (Banksia and Dryandra; Proteaceae) based on cpDNA and ... Mast, Austin R., Eric H. Jones and Shawn P. Havery (2005). "An assessment of old and new DNA sequence evidence for the ... nrDNA sequence data: implications for taxonomy and biogeography". Australian Systematic Botany. 11 (4): 321-342. doi:10.1071/ ...
Nepenthes macrophylla
Molecular phylogeny of Nepenthaceae based on cladistic analysis of plastid trnK intron sequence data. Plant Biology 3(2): 164- ... Molecular Phylogenetics and Evolution 39(2): 478-490. doi:10.1016/j.ympev.2005.11.023 Thorogood, C. 2010. The Malaysian ...
Sulfolobus
Another sequenced species, S. tokodaii has a circular chromosome as well but is slightly smaller with 2,694,756 bp. Both ... Sulfolobus is now used as a model to study the molecular mechanisms of DNA replication in Archaea. And because the system of ... Data extracted from the "NCBI taxonomy resources". National Center for Biotechnology Information. Retrieved 2007-03-19. J.P. ... In 2001, the first genome sequence of Sulfolobus, Sulfolobus solfataricus P2, was published. In P2's genome, the genes related ...
QIAGEN Silicon Valley
Corporation and Quest Diagnostics to develop a solution for scoring genetic variation for next generation sequencing data (NGS ... The software has been cited in thousands of scientific molecular biology publications and is one of several tools for systems ... IPA can be used with or without data. IPA helps researchers analyze data derived from expression and SNP microarrays, ... QIAGEN Silicon Valley's first product, IPA, was introduced in 2003, and is used to help researchers analyze omics data and ...
RK2 plasmid
Journal of Molecular Biology, Volume 239, Issue 5, 23 June 1994, Pages 623-663 Sequence data deposited at the NCBI: https://www ... "Molecular Characterization of the R Factors Implicated in the Carbenicillin Resistance of a Sequence of Pseudomonas aeruginosa ... 41: 77-101, October 1987 "Pansegrau et al.: "Complete Nucleotide Sequence of Birmingham IncPα Plasmids: Compilation and ... "The genome sequence of E. coli W (ATCC 9637): comparative genome analysis and an improved genome-scale reconstruction of E. ...
Insular India
Division of Molecular Genetics, University of Glasgow, Pontecorvo Building, 56 Dumbarton Rd, Glasgow G11 6NU, Scotland, UK c ... "Burma Terrane part of the Trans-Tethyan arc during collision with India according to palaeomagnetic data". Nature Geoscience. ... inferred from mitochondrial rRNA gene sequences, Department of Zoology, The Natural History Museum, London SW7 5BD, UK b ...
Nannophrys
Vences, M.; Wanke, S.; Odierna, G.; Kosuch, J.; Veith, M. (2000). "Molecular and karyological data on the south Asian ranid ... It used to be placed in the large frog family Ranidae but a phylogenetic study was undertaken using DNA sequences and it is now ...
Prunus × nudiflora
2014). "Molecular and morphological data revealed hybrid origin of wild Prunus yedoensis (Rosaceae) from Jeju Island, Korea: ... analyzed the genome of king cherry using long-read sequencing and sequence phasing and found king cherry is an F1 hybrid ... analyzed king cherry and Yoshino cherry with inter-simple sequence repeat (ISSR) markers and sequence analysis of two ... "Molecular Phylogeny of the Genus Prunus in Korea and Japan Inferred from Nuclear Ribosomal and Chloroplast DNA Sequences" (PDF ...
CADASIL
... insights from 3D molecular modelling and evolutionary analyses". Journal of Molecular Biochemistry. 3 (3): 97-105. Ropper AH, ... The definitive test is sequencing the whole Notch 3 gene, which can be done from a sample of blood. However, as this is quite ... as data regarding their benefit to CADASIL patients are limited. Antiplatelet agents such as aspirin, dipyridamole, or ...
Viroporin
The molecular architecture of the pore, its degree of selectivity, the extent to which it incorporates lipids from the ... Oxford JS, Galbraith A (1980). "Antiviral activity of amantadine: a review of laboratory and clinical data". Pharmacology & ... Sequence, Structure, Viroporin, and Inhibitors". Protein Science. 30 (6): 1114-1130. doi:10.1002/pro.4075. PMC 8138525. PMID ... though the precise molecular mechanism of this interaction is not known. The JC polyomavirus agnoprotein functions as a ...
Taxonomy of lemurs
Two competing phylogenies exist based on genetic and molecular data. One approach (Horvath et al.) looks at a larger number of ... New species have been identified due to differences in morphology, karyotypes, cytochrome b sequences, and other genetic tests ... "Molecular and genomic data identify the closest living relative of primates" (PDF). Science. 318 (5851): 792-794. Bibcode: ... Molecular tests may offer support, since they show that the aye-aye was the first to diverge in the lemur clade and that the ...
CD34
Finally, recent data suggest CD34 may also play a more selective role in chemokine-dependent migration of eosinophils and ... October 2009). "The molecular basis of vascular lumen formation in the developing mouse aorta". Developmental Cell. 17 (4): 505 ... September 1996). "Generation and analysis of 280,000 human expressed sequence tags". Genome Research. 6 (9): 807-828. doi: ... "Entrez Gene: CD34 CD34 molecule". Simmons DL, Satterthwaite AB, Tenen DG, Seed B (January 1992). "Molecular cloning of a cDNA ...
Tetratricopeptide repeat protein 39B
Three-dimensional structural data have shown that a TPR region forms two antiparallel alpha-helices. TPR motifs that are ... TTC39B is expected to have a molecular binding function as well as a role in lipid regulation; the phenotype as well as the ... "NetPhos 2.0 Server". Center for Biological Sequence Analysis. Retrieved 13 May 2013. "SUMOsp 2.0 - SUMOylation Site Prediction ... The data indicates that TTC39B as causal genes for lipid regulation. GRCh38: Ensembl release 89: ENSG00000155158 - Ensembl, May ...
Marine mammal
Results of Simultaneous Analyses of Molecular, Morphological, and Stratigraphic Data". Journal of Mammalian Evolution. 12 (1-2 ... relationships of artiodactyls and cetaceans as deduced from the comparison of cytochrome b and 12S RNA mitochondrial sequences ... Phocids (earless seals) are known to have existed for at least 15 mya, and molecular evidence supports a divergence of the ... Due to the difficulty to survey populations, 38% of marine mammals are data deficient, especially around the Antarctic Polar ...
Browsing by Subject "Molecular Sequence Data"
Genome sequence of Francisella tularensis subspecies holarctica strain FSC200, isolated from a child with tularemia
... accurate 1.89-Mb genome sequence of Francisella tularensis subsp. holarctica strain FSC200, isolated in 1998 in the Swedish ... Molecular Sequence Data * Sequence Analysis, DNA * Sweden * Tularemia / microbiology* Substances * DNA, Bacterial ... Genome sequence of Francisella tularensis subspecies holarctica strain FSC200, isolated from a child with tularemia J Bacteriol ... Here we report the complete, accurate 1.89-Mb genome sequence of Francisella tularensis subsp. holarctica strain FSC200, ...
Genetic and Transmission Analysis of Helicobacter pylori Strains within a Family - Volume 10, Number 10-October 2004 - Emerging...
Methods in molecular biology, computer analysis of sequence data. Totowa (NJ): Humana; 1994. p. 307-18. ... We sequenced the glmM genes of 47 randomly selected isolates. The glmM phylogenetic trees based on the neighbor-joining (data ... Multilocus sequence typing (MLST) tools were used to delineate clusters of strains by using sequence output available from the ... Mosaicism of the hspA 3′-end sequences. * Figure 3. Neighbor-joining unrooted dendrogram for hspA sequences. The tree includes ...
MMWR News Synopsis | CDC Online Newsroom | CDC
Combining data from public-health interviews and molecular sequencing creates a powerful new tool for understanding communities ... Analyzing HIV molecular sequence data can also identify networks of potential transmission partners. Among named partner ... Supplementing named partner data with molecular data might detect HIV transmission networks not elucidated through traditional ... linkages where both people had an HIV sequence available, 33.8 percent also had a molecular linkage and were deemed plausible ...
Dr. Laurence Packer: Curriculum Vitae - Packer Lab - York University
... based on parsimony and likelihood analyses of nuclear EF-1α sequence data. Molecular Phylogenetics and Evolution. 13: 605-618. ... Amalgamation of molecular and morphological data for the Xeromelissinae. A. Ponte. Honours Thesis. 2012-2013. Diploid male ... Bayesian analysis of molecular data for the Xeromelissinae. M. Miklasevskaja. Honours Thesis. 2013-2014. Fluctuating asymmetry ... "Resolving conflict between molecular and morphological data: The systematic position of Coelioxoides." OE3C, Toronto, Canada 14 ...
SVSBI: sequence-based virtual screening of biomolecular interactions | Communications Biology
However, the accuracy of current VS models heavily relies on three-dimensional (3D) structures obtained through molecular ... A sequence-based virtual screening method uses natural language processing algorithms and optimized deep K-embedding strategies ... To address this issue, we introduce a sequence-based virtual screening (SVS) as another generation of VS models that ... Furthermore, an in-house small molecular Transformer was trained with over 700 million sequence data24. However, none of these ...
Trends in HIV-2 Diagnoses and Use of the HIV-1/HIV-2 Differentiation Test - United States, 2010-2017 | MMWR
A positive quantitative or qualitative nucleic acid test result or molecular sequence data for an HIV-1 genotypic drug- ... and retrieving HIV-related data), was developed for use with surveillance data to report epidemiologic trends. Identification ... Data from CDCs NHSS collected through December 2018.. †Diagnoses in NHSS with no evidence of an HIV-2, HIV-2 probable but ... Data from CDCs NHSS collected through December 2018.. †Diagnoses in NHSS with no evidence of HIV-2, HIV-2 probable but not ...
Phylemon -- A suite of web tools for molecular evolution, phylogenetics and phylogenomics | HSLS
Phylemon is an online platform for phylogenetic and evolutionary analyses of molecular sequence data. ... as a natural response to the increasing demand of data analysis of many experimental scientists wishing to add a molecular ... Tools included in Phylemon cover a wide yet selected range of programs: from the most basic for multiple sequence alignment to ... Phylemon -- A suite of web tools for molecular evolution, phylogenetics and phylogenomics. URL: ...
Current Faculty Participants | REU Program | Vanderbilt University
Additionally, we explore data generated from molecular dynamics simulations along with next-generation sequencing of directed ... We seek to develop technologies for diagnostic and research applications at the nano and molecular level using both in vitro ... The Yang group is actively exploring opportunities in the interface between computational chemical biology and data science. My ... Recently, we have become interested in using our technology to understand the molecular basis of health disparities in ...
Human - wikidoc
"Molecular phylogeny of the hominoids: inferences from multiple independent DNA sequence data sets". Mol Biol Evol. 14 (3): 248 ... Technology has even advanced so as to allow the communication of mass data upon request and over great distance through data- ... In this way data networks are important to the continuing development of language; changing it as just as Gutenberg did with ... Full genome sequencing has resulted in the conclusion that "after 6.5 [million] years of separate evolution, the differences ...
Heliconius
Within Heliconius the relationships presented here are based on molecular sequence data for 3 mtDNA and 4 nuclear gene regions ... Inferences from multilocus DNA sequence data. Biological Journal of the Linnean Society in press. ... Click on an image or a media link to access the media data window, which provides the relevant licensing information. For the ... Click on an image to view larger version & data in a new window ... Click on an image to view larger version & data in a new window ...
UCI Machine Learning Repository: Data Sets
ZFIN Publication: van der Aa et al., 2010
Molecular Sequence Data. *Phylogeny. *Sequence Alignment. *Zebrafish/genetics*. *Zebrafish/immunology. PubMed. 20865040 Full ... A diversity of sequences similar to CXCL8 was reported in fish, but their evolutionary relationships and functional homology ... PRINCIPAL FINDINGS: We screened fish genomes to seek for sequences related to CXCL8. A first lineage was retrieved in all ...
PhD Opportunities | REF: SBIO-2020-1085 - BIO-PHD | Courses | Queen's University Belfast
By interfacing single cell sequence data with the molecular tools at our disposal, this project will enhance understanding of ... 9. Next-generation sequencing; 10. Multiplex biosensor platforms and LFD development.. Internationally Renowned Experts. * ... This work provides a blueprint for a new approach to metazoan biology that allows single-cell data to support a better ... This project will exploit new single-cell transcriptome data for liver fluke to drive predictions of cell functions that ...
screenshots.debian.net
Regulation of the transcription and replication cycle of human cytomegalovirus is insensitive to genetic elimination of the...
Molecular Sequence Data, Mutation, NF-kappa B, Promoter Regions, Genetic, Transcription, Genetic, Virus Replication", ... keywords = "Base Sequence, Binding Sites, Cell Line, Cytomegalovirus, Enhancer Elements, Genetic, Gene Deletion, Gene ... These data reveal the robustness of the regulatory network controlling the MIEP enhancer. ... These data reveal the robustness of the regulatory network controlling the MIEP enhancer.", ...
Correcting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours | bioRxiv
1European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, ... Correcting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours. Laleh Haghverdi, View ORCID ... The presence of batch effects is a well-known problem in experimental data analysis, and single- cell RNA sequencing (scRNA-seq ... Correcting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours ...
Birder's World Field of View: New research shows that much of bird classification is wrong
Diversification of Neoaves: integration of molecular sequence data and fossils. Biology Letters doi:10.1098/rsbl.2006.0523 ... Read a story about the Pritzker Laboratory for Molecular Systematics and Evolution at the Field Museum. ... the most exhilarating moment of the meeting was delivered by scientists who were using mtDNA and nuclear data to shed light ...
Pediatric Cancer Researchers, Clinicians Look to Enhance Molecular Data Collection, Distribution | GenomeWeb
... speakers emphasized measures such as data harmonization and the need for longitudinal data collection. ... At the NCIs Childhood Cancer Data Initiative Symposium, ... Retrospective whole-genome sequence data from 10,000 study ... The database started in June with prospective data from 685 patients who had undergone clinical genomic sequencing, and data ... The idea is to give researchers and clinicians, who may not have access to high-tech sequencing resources, data that can help ...
Use of DNA sequence and mutant analyses and antisense oligodeoxynucleotides to examine the molecular basis of nonmuscle myosin...
... has been determined by elucidation of the cDNA sequence encoding the protein kina ... data&figures Data & Figures. contents Contents. supplements Supplements. references References. related&metrics Related & ... Use of DNA sequence and mutant analyses and antisense oligodeoxynucleotides to examine the molecular basis of nonmuscle myosin ... Use of DNA sequence and mutant analyses and antisense oligodeoxynucleotides to examine the molecular basis of nonmuscle myosin ...
Search and Destroy | The Scientist Magazine®
2008-2009 Graduate Calendar - Biotechnology
Analysis of DNA/RNA/protein sequence data, including mutagenic processes, molecular evolution and systematics, codon usage, ... Molecular design, synthesis and fermentation technology. Theoretical, computational, synthetic and applied approaches to the ... BTEC 5P51 Molecular Virology (also offered as BIOL 5P51) A seminar course on virus-host interaction, productive cycle, effect ... Emphasis on the molecular/biochemical tools used to study these pathways. Note: course taught in conjunction with BIOL/BCHM/ ...
Publications of Arun Sampathkumar | Max Planck Institute of Molecular Plant Physiology
Catalogue of Organisms: The Trials and Tribulations of Tree Moss
A molecular phylogeny of Hypnales (Bryophyta) inferred from ITS2 sequence-structure data. BMC Research Notes 3: 320.. Olsson, S ... More to the point, Merget & Wolf were using that most wretched of molecular methods, neighbour joining, and despite their use ... the various Lembophyllaceae lack any reliable shared morphological characters and are united on the basis of molecular data ( ... Supporters of the latter point to the low levels of morphological and molecular differentiation between individuals from ...
DeCS
Data, Molecular Sequence Data, Molecular Sequencing Molecular Sequencing Data Sequence Data, Molecular Sequencing Data, ... Data, Molecular Sequence. Data, Molecular Sequencing. Molecular Sequencing Data. Sequence Data, Molecular. Sequencing Data, ... Molecular Sequence Data - Preferred Concept UI. M0013986. Scope note. Descriptions of specific amino acid, carbohydrate, or ... numbers for sequences deposited in a molecular sequence databank such as GenBank or for the presence of molecular sequences in ...
big data
Examples of big data include the following: diagnostic medical imaging, DNA sequencing and other molecular technologies, ... Public Health Approach to Big Data in the Age of Genomics: How Can we Separate Signal from Noise?. The term Big Data is used to ... describe massive volumes of both structured and unstructured data that is so large and complex it is difficult to process and ... big data - Genomics and Precision Health Blog ... Categories big data, epidemiology, evidence-based medicine, ...
Species Identification Confirmation of Medicago of NPGS Germplasm - Arizona State University
... obtain sequence data and re-analyze those data as described above. Molecular markers: We will use the following molecular ... Those data will be added to a data set of available sequences for each marker and a concatenated data set of the three markers ... Sequence data for the three molecular markers described below will be obtained for each accession. ... unpublished data). We are now sequencing ycf1 and have a number of sequences from various accessions of Medicago that show a ...
BSB: Brazilian Symposium on Bioinformatics 2024 2023 2022 ...
Molecular Sequence Analysis, Motifs, and Pattern Matching •Biological Databases, Data Management, Data Integration, and Data ... Statistical Analysis of Molecular Sequences •Cheminformatics and Computer-Aided Drug Design •Molecular Docking and Modeling ... Big Data Analytics and High-Performance Computing in Bioinformatics and Computational Biology •Comparative, Structural, ... molecular biology, biochemistry, genetics, medicine, microbiology, and others) to submit papers describing original work ...
BiologyNucleotideIlluminaGeneticsGeneticEpidemiologyGENBANKPhylogenyAmino acidViralMicrobiologyClinicalExomeAssayAlignmentGenomicsSpeciesGenome sequenceClassificationAccessionEvolutionAnalysisAnalysesGenomesGenomicMultilocusTranscriptome dataGenesProteinMechanismEvolutionaryRoutinelyComplexSuggestsDiagnosticDatabasesMethodsTechnologiesAnalyzeCharacteristicsSimilarCliniciansResultsCellScientistsInitiative
Biology7
- With advanced techniques in data collecting, processing, analyzing, and representing, modern computational biology can study biological processes at extraordinary scales and multiple dimensions. (nature.com)
- This work provides a blueprint for a new approach to metazoan biology that allows single-cell data to support a better understanding of complex living systems. (qub.ac.uk)
- The idea is to give researchers and clinicians, who may not have access to high-tech sequencing resources, data that can help them better understand the biology of pediatric cancers and make treatment decisions for patients. (genomeweb.com)
- 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. (bvsalud.org)
- BSB 2021 would like to attract participation from academic and industrial researchers, both in the exact sciences (computer science, mathematics, and statistics) and the life sciences (molecular biology, biochemistry, genetics, medicine, microbiology, and others) to submit papers describing original work related to the topics indicated below. (wikicfp.com)
- He received his B.S. in biochemistry and molecular biology from Peking University and his Ph.D. in computational biology from Baylor College of Medicine. (agbt.org)
- Critical Reviews in Biochemistry and Molecular Biology. (cdc.gov)
Nucleotide1
- There are significant structural features in the viral genomic RNA that could, by themselves, explain the retention of the ORF10 nucleotide sequences without the need for a functional protein product. (bvsalud.org)
Illumina2
Genetics3
- The School of Biological Sciences provides PhD and MPhil (research degree) programmes in subjects ranging from basic biochemistry, molecular genetics and cancer research, to agricultural science, marine ecology and the economic evaluation of ecosystem services and food retailing. (qub.ac.uk)
- The study, published in the journal Nature Genetics, is the largest of its kind to date and uses whole-genome sequencing data from more than 120 patients with malignant pleural mesothelioma. (who.int)
- If precision medicine approaches are to become part of routine healthcare, doctors and other healthcare providers will need to know more about molecular genetics and biochemistry. (medlineplus.gov)
Genetic5
- To assess the genetic diversity and relationships between the isolates, we sequenced two housekeeping genes ( glmM and hspA ). (cdc.gov)
- Knowledge of the molecular pathways altered in tumor cells, coupled with a wealth of genetic sequencing data from individual patients' changing cancer. (the-scientist.com)
- nmMLCK is distinct from and larger than smooth muscle MLCK (smMLCK), although their extended DNA sequence identity is suggestive of a close genetic relationship not found with skeletal muscle MLCK. (rupress.org)
- Dr. Shen currently directs National Institutes of Health-funded research programs that integrate genomics data to predict functional impact of genetic variation by machine learning and identify genetic causes of human diseases. (agbt.org)
- Additionally, drugs that are developed to treat conditions based on molecular or genetic variations are likely to be expensive. (medlineplus.gov)
Epidemiology3
- The molecular data and relative distribution of these species in relation to their vectorial capacity and the epidemiology of malaria in the region are discussed. (who.int)
- These data provide insight into zoonotic reservoirs of human-infective T. trichiura and will support future efforts toward the implementation of genomic epidemiology of this globally important helminth. (bvsalud.org)
- Epidemiology and Molecular Characteristics of mcr-9 in Citrobacter spp. (cdc.gov)
GENBANK2
- This was confirmed by the high similarity (99.2%-100%) of their sequences with those available in GenBank. (who.int)
- Descripciones de secuencias especÃficas de aminoácidos, carbohidratos o nucleótidos que han aparecido en publicaciones o están incluidas y actualizadas en bancos de datos como el GENBANK, el Laboratorio Europeo de BiologÃa Molecular (EMBL), la Fundación Nacional de Investigación Biomédica (NBRF) u otros archivos de secuencias. (bvsalud.org)
Phylogeny1
- The PHYLogeny Inference Package is a package of programs for inferring phylogenies (evolutionary trees) from sequences. (debian.net)
Amino acid2
- The analysis of 20 mutant MLCKs indicates that the autoinhibitory and CaM recognition activities are centered in distinct but functionally coupled amino acid sequences (residues 1,068-1,080 and 1,082-1,101, respectively). (rupress.org)
- Also and they were told about the aim of the molecular similarity has been observed study, and were informed that the data between IRRET amino acid sequence which would be used for scientific purposes only. (who.int)
Viral2
- This technique involves using information from molecular tests used in routine clinical care that determine the sequences of HIV viral genes to help clinicians pick the best HIV treatment regimen for their patient. (cdc.gov)
- Sequencing of viral RNA in the lungs of hamsters infected with ORF10KO virus revealed that this virus frequently reverts to WT. (bvsalud.org)
Microbiology1
- Medical Microbiology & through molecular mimicry mechanism. (who.int)
Clinical3
- Initially illnesses were reported only in the genome sequencing of clinical and environmental samples from the outbreak revealed a new V. parahaemolyticus northern cities of Peru (Cajamarca, Chiclayo, and Piura), clone. (cdc.gov)
- St. Jude Children's Research Hospital's bioinformatics group recently launched the St. Jude Cloud , a repository of pediatric clinical genome sequencing data available in real time. (genomeweb.com)
- The database started in June with prospective data from 685 patients who had undergone clinical genomic sequencing, and data from an additional 273 people was made available in July. (genomeweb.com)
Exome2
- The initiative is aiming to provide researchers with high-quality whole-genome, exome, and transcriptome data from consenting St. Jude patients. (genomeweb.com)
- 2014), a method to identify rare copy number variants from exome sequencing data, and gMVP (Zhang et al. (agbt.org)
Assay4
- ABSTRACT A diagnostic polymerase chain reaction (PCR) assay using species-specific primers and direct sequencing was used to identify members of the Anopheles maculipennis complex in the north-west and central regions of the Islamic Republic of Iran. (who.int)
- Specimens were collected from 9 provinces during 2 seasonal activities in 2001-2002, identified morphologically and subjected to PCR assay and direct sequencing. (who.int)
- Tim Triche, co-director for the Center of Personalized Medicine at Children's Hospital Los Angeles (CHLA), has also started a data collection effort related to his center's use of a targeted sequencing panel that he and his team at CHLA have developed in partnership with Thermo Fisher Scientific, called the Oncomine Childhood Cancer Research Assay, or OncoKids. (genomeweb.com)
- A Custom Hepatitis A Virus Assay for Whole-Genome Sequencing. (cdc.gov)
Alignment1
- Tools included in Phylemon cover a wide yet selected range of programs: from the most basic for multiple sequence alignment to elaborate statistical methods of phylogenetic reconstruction including methods for evolutionary rates analyses and molecular adaptation. (pitt.edu)
Genomics3
- Public Health Approach to Big Data in the Age of Genomics: How Can we Separate Signal from Noise? (cdc.gov)
- Using whole-genome sequencing of geographically distributed worms collected from human and other primate hosts, together with ancient samples preserved in archaeologically-defined latrines and deposits dated up to one thousand years old, we present the first population genomics study of T. trichiura. (bvsalud.org)
- The Rare Cancers Genomics Team at IARC has used sequencing data to uncover sources of molecular variation in malignant pleural mesothelioma, paving the way for a revised classification system that could change the manner in which the disease is diagnosed and treated. (who.int)
Species4
- H. pylori is one of the most genetically diverse bacterial species, displaying from 2.7% to 8.0% of DNA sequence polymorphism ( 14 - 16 ). (cdc.gov)
- We have routinely obtained DNA sequence data from matK and nrDNA ITS from a wide variety of temperate legumes in addition to many species of Medicago (Steele et al. (elsevier.com)
- New computational methods including FALCON and Assemblytics for assembling and analyzing the genomes of different species using single molecule sequencing, especially plant and animal species, to study their evolution and adaption. (agbt.org)
- As convergent evolution is common in coinhabiting parasites, a mitochondrial gene sequence (cox1) and ribosomal gene sequence (ITS1) were used to identify species similar to Trichuris from Chinese serow. (bvsalud.org)
Genome sequence6
- Here we report the complete, accurate 1.89-Mb genome sequence of Francisella tularensis subsp. (nih.gov)
- Whole-genome sequence contigs clone ST-3, which also originated in Asia ( 8 , 12 ). (cdc.gov)
- Retrospective whole-genome sequence data from 10,000 study participants is also available in the repository. (genomeweb.com)
- Small, 2011) and is based on results of phylogenetic analyses of a variety of molecular markers (Steele et al, 2010) and low coverage whole genome sequence data (Yoder et al. (elsevier.com)
- Tracing Foodborne Botulism Events Caused by Clostridium botulinum in Xinjiang Province, China, Using a Core Genome Sequence Typing Scheme. (cdc.gov)
- To explore this question further we made two recombinant viruses, firstly a control virus (WT) based on the genome sequence of the original Wuhan isolate and with the inclusion of the early D614G mutation in the Spike protein. (bvsalud.org)
Classification1
- MEGARes and AMR++, v3.0: an updated comprehensive database of antimicrobial resistance determinants and an improved software pipeline for classification using high-throughput sequencing. (cdc.gov)
Accession1
- Sequence data for the three molecular markers described below will be obtained for each accession. (elsevier.com)
Evolution2
- It has been conceived as a natural response to the increasing demand of data analysis of many experimental scientists wishing to add a molecular evolution and phylogenetics insight into their research. (pitt.edu)
- His innovative biotechnologies and computational tools to study the sequence and function of genomes are advancing the understanding of the structure, evolution, and function of genomes for medicine - particularly autism spectrum disorders, cancer, and other human diseases - and agriculture. (agbt.org)
Analysis7
- Analysis of the sequences of housekeeping genes ( atpD , scoB , glnA and recA ) showed that strains cluster according to their geographic origins ( 15 , 20 ). (cdc.gov)
- The presence of batch effects is a well-known problem in experimental data analysis, and single- cell RNA sequencing (scRNA-seq) is no exception. (biorxiv.org)
- The first primary structure for a nonmuscle myosin light chain kinase (nmMLCK) has been determined by elucidation of the cDNA sequence encoding the protein kinase from chicken embryo fibroblasts, and insight into the molecular mechanism of calmodulin (CaM) recognition and activation has been obtained by the use of site-specific mutagenesis and suppressor mutant analysis. (rupress.org)
- Analysis of enzyme chimeras, random mutations, inverted sequences, and point mutations in the 1,082-1,101 region demonstrates its functional importance for CaM recognition but not autoinhibition. (rupress.org)
- NGMLR and Sniffles are long-read sequencing analysis methods to study the longer fragments of DNA, a breakthrough that may yield critical information about how cancer genomes evolve. (agbt.org)
- At Baylor, Shen led the analysis of the first human genome sequenced by next-generation technologies. (agbt.org)
- Public health staff may also identify a cluster by using molecular data analysis. (cdc.gov)
Analyses4
- Phylemon is an online platform for phylogenetic and evolutionary analyses of molecular sequence data. (pitt.edu)
- Use of DNA sequence and mutant analyses and antisense oligodeoxynucleotides to examine the molecular basis of nonmuscle myosin light chain kinase autoinhibition, calmodulin recognition, and activity. (rupress.org)
- this change is supported by phylogenetic analyses of a number of molecular markers including nrDNA ITS and matK and other nuclear-encoded genes (Bena et al. (elsevier.com)
- The main purpose of the CKQ questionnaire was to collect data on factors which may cause transient elevations in CPK (a history of recent injury or heavy physical exertion) so that data analysts can account for such cases in their analyses of the relationship of CPK to health conditions. (cdc.gov)
Genomes1
- PRINCIPAL FINDINGS: We screened fish genomes to seek for sequences related to CXCL8. (zfin.org)
Genomic4
- Supported by underpinning technological expertise in cutting edge molecular, genomic, transcriptomic/proteomic and metabolomic methods, the goal of the theme is to transform Agri-Food systems so that they benefit both human nutrition and health while simultaneously reducing the greenhouse gases emissions from livestock production systems, protecting ecological resources, supporting livelihoods and affordable foods, and upholding social, cultural, and ethical values. (qub.ac.uk)
- NEW YORK - Large genomic databases for adult cancers, such as The Cancer Genome Atlas, have pioneered the collection of petabytes worth of genomic, epigenomic, transcriptomic, and proteomic data. (genomeweb.com)
- When it comes to pediatric cancer, there is no such similar genomic data repository. (genomeweb.com)
- First, there will be an opportunity to aggregate that data into an ever-larger … database of genomic features encountered in childhood cancer," Triche said in an interview. (genomeweb.com)
Multilocus2
- Strain relationships within the family were determined by analyzing allelic variation at both loci and building phylogenetic trees and by using multilocus sequence typing. (cdc.gov)
- tern of dominance afterwards because of the presence of In silico multilocus sequence typing (MLST) by multiple serotypes. (cdc.gov)
Transcriptome data1
- This project will exploit new single-cell transcriptome data for liver fluke to drive predictions of cell functions that support growth and virulence. (qub.ac.uk)
Genes2
- We compared the sequences of two housekeeping genes ( hspA and glmM ) from these clones with those of 131 unrelated strains from patients living in different geographic regions. (cdc.gov)
- Clonal descent has been demonstrated by comparing alleles of genes such as vacA , flaA , and flaB of isolates infecting members of the same family ( 10 - 12 ) and by sequencing three housekeeping genes ( ureI , atpA , and ahpC ) ( 13 ). (cdc.gov)
Protein2
- Data were acquired using unbiased data-independent mass spectrometry (MS). Statistically significant and measures were processed in ProteinLynx Global Server and sequenced using in-house software EndogeSeq against selective subsets of a mouse UniProt protein database. (cdc.gov)
- The functioning of NSP12 was dependent on the T-complex protein Ring Complex, a molecular chaperone. (bvsalud.org)
Mechanism1
- standards of the responsible committee on Proteus mirabilis is thought to contribute in RA development in susceptible individuals human experimentation (institutional and through molecular mimicry mechanism. (who.int)
Evolutionary1
- A diversity of sequences similar to CXCL8 was reported in fish, but their evolutionary relationships and functional homology with their human homolog remain unclear. (zfin.org)
Routinely1
- To conduct the strategy, agencies first use data routinely reported to health departments to identify where HIV prevention and treatment services and other interventions are urgently needed. (cdc.gov)
Complex3
- The Kim group works in the areas of complex molecule synthesis and catalysis, focusing on the design of novel ligands and catalysts that enable site selective reactivity in highly oxidized systems by leveraging phenomena like molecular recognition and non-covalent directing effects. (vanderbilt.edu)
- The term Big Data is used to describe massive volumes of both structured and unstructured data that is so large and complex it is difficult to process and analyze. (cdc.gov)
- Antibiotic resistance surveillance of Klebsiella pneumoniae complex is affected by refined MALDI-TOF identification, Swiss data, 2017 to 2022. (cdc.gov)
Suggests2
- When a group of people have similar molecular HIV sequences, it suggests that little time has passed between when HIV was acquired and transmitted. (cdc.gov)
- Our data suggests that the retention of a functional ORF10 sequence is highly desirable for SARS-CoV-2 infection of hamsters and affects the virus's ability to propagate in the lower respiratory tract. (bvsalud.org)
Diagnostic1
- We seek to develop technologies for diagnostic and research applications at the nano and molecular level using both in vitro and in vivo systems.The Haselton Laboratory is an active participant in LIGHT, which aims to accelerate the development of global health technologies in a multidisciplinary research environment addressing the needs of patients and physicians in low-resource settings. (vanderbilt.edu)
Databases4
- Alongside TCGA, the National Cancer Institute developed data hubs and coordination centers that paved the way for data harmonization and standardization, so that anyone accessing these various databases or uploading information to them started on the same baseline. (genomeweb.com)
- Though several research centers and children's hospitals have begun to collect and disseminate data on their own, there aren't any agreed-upon standards from one database to another, like there are with adult cancer databases. (genomeweb.com)
- In order to begin developing a model of data federation that's more in-line with what's been created for adult cancer databases, the NCI last week convened a meeting of stakeholders from academia, government, industry, and advocacy organizations for the Childhood Cancer Data Initiative (CCDI) Symposium, to discuss the challenges unique to pediatric cancer data and how to solve them. (genomeweb.com)
- They also needed databases to store large amounts of patient data efficiently. (medlineplus.gov)
Methods2
- We demonstrate the superiority of our approach over existing methods on a range of simulated and real scRNA-seq data sets. (biorxiv.org)
- More to the point, Merget & Wolf were using that most wretched of molecular methods, neighbour joining, and despite their use of a large number of source taxa it is difficult to accord their results much significance. (fieldofscience.com)
Technologies1
- Technologies such as sequencing large amounts of DNA are expensive to carry out (although the cost of sequencing is decreasing). (medlineplus.gov)
Analyze2
- The resulting infrastructure is one that allows users to not only access and download the raw data, but also work within the ecosystem to analyze it, according to Alexander Gout, a bioinformatician at St. Jude who worked on building the cloud. (genomeweb.com)
- For accessions suspected of being misidentified we will first re-isolate DNA from the voucher specimen and again, obtain sequence data and re-analyze those data as described above. (elsevier.com)
Characteristics1
- data include patient demographic characteristics, HIV transmission risk category, and laboratory test results. (cdc.gov)
Similar1
- These sequences are then reported to the health department and may be used to identify similar sequences circulating in their jurisdiction. (cdc.gov)
Clinicians1
- Further, CHLA and Thermo Fisher are looking to share the data from OncoKids with other cancer researchers and clinicians. (genomeweb.com)
Results2
- To describe the percentage of diagnoses for which an HIV-1/HIV-2 differentiation test result was reported and to categorize HIV type based on laboratory test results, 2010-2017 data from CDC's National HIV Surveillance System (NHSS) were analyzed. (cdc.gov)
- Treatment of chicken and mouse fibroblasts with antisense oligodeoxynucleotides based on the cDNA sequence results in an apparent decrease in MLCK levels, an altered morphology reminiscent of that seen in v-src-transformed cells, and a possible effect on cell proliferation. (rupress.org)
Cell1
- By interfacing single cell sequence data with the molecular tools at our disposal, this project will enhance understanding of selected parasite cells, particularly stem cells, and drive new drug target discovery and validation pipelines for parasite control. (qub.ac.uk)
Scientists1
- But for my money, the most exhilarating moment of the meeting was delivered by scientists who were using mtDNA and nuclear data to shed light upon a group of birds known as nine-primaried oscines -- tanagers, cardinals and grosbeaks, New World sparrows, New World blackbirds, and wood-warblers. (typepad.com)
Initiative2
- The NIH Precision Medicine Initiative channel on YouTube offers videos of talks by leading experts on various aspects of the project, including issues related to data collection and sharing, storing data in electronic health records, and participant protection. (medlineplus.gov)
- The Precision Medicine Initiative has information about its Privacy and Trust Principles and Data Security Policy Principles and Framework . (medlineplus.gov)