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Directories as TopicMolecular BiologyInternetDatabases, GeneticDatabases, Nucleic AcidComputational BiologySoftwareDatabases, FactualGreat BritainTaiwanPeptide Nucleic AcidsResearchDatabases as TopicGeneral PracticeFamily PracticeCohort StudiesIncidenceCase-Control StudiesContraceptives, Oral, CombinedRisk FactorsPharmacoepidemiologyArm BonesNucleic Acid ConformationDrug PrescriptionsNucleic Acid ProbesDatabase Management SystemsPhysician's Practice PatternsAge DistributionRetrospective StudiesNucleic Acid Amplification TechniquesResearch Support as TopicResearch DesignElectronic Health RecordsFractures, BoneUser-Computer InterfaceMedical Records Systems, ComputerizedEncyclopedias as TopicNucleic AcidsDeoxyriboseRiboseDNAMedlinePlusConsumer Health InformationSocial MediaDissent and DisputesPeer Review
201810.10932016ProteinsPhosphorylation siteDeoxyribonucleic acidKnowledgebase2020GenomicBiologicalHttpsEvolutionaryGenomesGenomicsEukaryoticGene2017BiologyExperimentalAmino acidsSupplNCBIDetectionPfamEntitiesClinicalAnnotationHuman genomeGeneticModel organismJournalMethodsSequenceClinVarProcessesCentreSearchCollectionGenesLaboratoryStudiesAnalysisSequencesAnnualDataFrontiersFormComprehensive databaseSystematic
20183
  • The 2018 Nucleic Acids Research database issue features several papers from NCBI staff that cover the status and future of databases including CCDS, ClinVar, GenBank and RefSeq. (nih.gov)
  • The 2018 Nucleic Acids Research database issue and the online molecular biology database collection. (cdc.gov)
  • Performance evaluation of pathogenicity-computation methods for missense variants, Nucleic Acids Research, Volume 46, Issue 15, 6 September 2018, Pages 7793-7804, https://doi.org/10.1093/nar/gky678. (lu.se)
10.10933
  • doi:10.1093/database/baab015. (caltech.edu)
  • Our new database, Translocatome was published in the 2019 Database issue of Nucleic Acid Research (https://doi.org/10.1093/nar/gky1044) and is accessible here . (linkgroup.hu)
  • doi: 10.1093/database/bau081. (udel.edu)
20161
Proteins6
  • The structural comparison of binding sites is especially useful when applied on distantly related proteins as a comparison solely based on the amino acid sequence is not sufficient in such cases. (uni-marburg.de)
  • a map is constructed that shows interactions among molecular entities (such as genes, proteins and RNAs), using information from literature and databases. (hindawi.com)
  • ProMEX: a mass spectral reference database for proteins and protein phosphorylation sites. (mpg.de)
  • The database contains a gold standard core dataset of 213 manually curated, experimentally verified translocating human proteins + 1133 human proteins predicted to be translocated by high probability based on their GO and compartmentalized interactome properties. (linkgroup.hu)
  • NC also exhibits a strong affinity for both nucleic acids (DNA and RNA) and proteins (antigens and antibodies) and is, therefore, used extensively in research and clinical settings for the immobilization of nucleic acids and/or proteins for analysis. (cdc.gov)
  • Commonly, nucleic acids or proteins are electrophoretically separated on agarose or acrylamide gels and then transferred (blotted) from the gel onto the NC. (cdc.gov)
Phosphorylation site2
  • PhosPhAt: a database of phosphorylation sites in Arabidopsis thaliana and a plant-specific phosphorylation site predictor. (mpg.de)
  • PhosPhAt: the Arabidopsis thaliana phosphorylation site database. (udel.edu)
Deoxyribonucleic acid2
  • The two main classes of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). (wikipedia.org)
  • After the deoxyribonucleic acid (DNA) sequence of the human genome was completed in 2003, the reference sequence underwent several improvements and today provides the underlying comparative resource for a multitude genetic assays and biochemical measurements. (scienceblogs.com)
Knowledgebase2
  • The Rice Genome Knowledgebase (RGKbase): an annotation database for rice comparative genomics and evolutionary biology. (openwetware.org)
  • UniProt: the universal protein knowledgebase Nucleic Acids Res. (udel.edu)
20202
Genomic5
  • NCBI has become a central repository for genomic sequence data in humans and other species and has developed many other public databases, such as dbSNP (for single nucleotide polymorphisms, or SNPs) and Entrez Gene (for genes) ( 5 , 6 ). (cdc.gov)
  • Human genome epidemiology is the basic science for translating genomic research, relating genetic variation with variability in health status among well-defined groups of people. (cdc.gov)
  • While studies of non-model organisms are critical for many research areas, such as evolution, development, and environmental biology, they present particular challenges for both experimental and computational genomic level research. (biomedcentral.com)
  • These and many other functional genomics studies rely on full genomic sequence to establish well-annotated databases. (biomedcentral.com)
  • National Research Programs for Genomic Medicine (NRPGM), Taiwan, from year 2002. (tbi.org.tw)
Biological4
  • Experimental studies of nucleic acids constitute a major part of modern biological and medical research, and form a foundation for genome and forensic science, and the biotechnology and pharmaceutical industries. (wikipedia.org)
  • The basic component of biological nucleic acids is the nucleotide, each of which contains a pentose sugar (ribose or deoxyribose), a phosphate group, and a nucleobase. (wikipedia.org)
  • Well-studied biological nucleic acid molecules range in size from 21 nucleotides (small interfering RNA) to large chromosomes (human chromosome 1 is a single molecule that contains 247 million base pairs). (wikipedia.org)
  • USDOE Office of Science (SC), Biological and Environmental Research (BER). (osti.gov)
Https2
  • Source code developed for this project is available at https://github.com/bio-ontology-research-group/phenomenet-vp , and analysis results at http://www.cbrc.kaust.edu.sa/onto/pvp/ . (plos.org)
  • The HUGO Gene Nomenclature Committee maintains a database of approved, unique gene names and symbols, which currently includes more than 28,000 genes ( https://www.genenames.org ) ( 9 ). (cdc.gov)
Evolutionary2
  • For the ASC study, only the most damaging class of dnMis variants-as judged by a composite score involving evolutionary conservation and likelihood an amino acid substitution is damaging [ 6 ]-shows strong signal for enrichment in ASD subjects. (springer.com)
  • Protein structure database search and evolutionary classification. (tbi.org.tw)
Genomes3
  • There are numerous exceptions, however-some viruses have genomes made of double-stranded RNA and other viruses have single-stranded DNA genomes, and, in some circumstances, nucleic acid structures with three or four strands can form. (wikipedia.org)
  • VectorBase is focused on invertebrate vectors of human pathogens working with the sequencing centers and the research community to curate vector genomes (mainly genome annotation). (wikipedia.org)
  • DLGP: A database for lineage-conserved and lineage-specific gene pairs in animal and plant genomes. (openwetware.org)
Genomics2
  • TOPSAN: a dynamic web database for structural genomics. (jcvi.org)
  • Tools like the TIGR Gene index [ 35 ] and Unigene [ 36 ] provide significant information on many species, yet these databases do not meet the needs of functional genomics projects for many non-model species. (biomedcentral.com)
Eukaryotic2
  • Although first discovered within the nucleus of eukaryotic cells, nucleic acids are now known to be found in all life forms including within bacteria, archaea, mitochondria, chloroplasts, and viruses (There is debate as to whether viruses are living or non-living). (wikipedia.org)
  • Xpro is a relational database that contains all the eukaryotic protein-encoding DNA sequences contained in GenBank with associated data required for the analysis of eukaryotic gene architecture. (edu.au)
Gene3
  • 80 hydrolysis, nicotinic acid, nitrate reductase and urease, (rep-PCR) has been used to differentiate mycobacterial distinct fatty and mycolic acid patterns, and unique 16S strains associated with disease outbreaks in mesotherapy rRNA and 65-kDa heat-shock protein gene sequences. (cdc.gov)
  • GabiPD - The GABI Primary Database integrates plant proteomic data with gene-centric information. (mpg.de)
  • HCC-related targets were identified using gene cards and the Online Mendelian Inheritance in Man (OMIM) database. (bvsalud.org)
20171
  • Nucleic Acids Res.2017;45(D1):D339-D346. (udel.edu)
Biology2
Experimental3
  • The values of parameters in this model can be determind from literature, databases or they are directly estimated from quantitative experimental data using optimization methods. (hindawi.com)
  • hp-DPI: Helicobacter pylori database of protein interactomes--embracing experimental and inferred interactions. (tbi.org.tw)
  • The course is compulsory for all graduate students at KILU and recommanded for other graduate students at KC that have experimental research or teaching. (lu.se)
Amino acids2
  • Using amino acids and protein synthesis, the specific sequence in DNA of these nucleobase-pairs helps to keep and send coded instructions as genes. (wikipedia.org)
  • When MspA's residues are colored by charge (negatively charged amino acids are shown in red, positively charged in blue and neutral in gray) we can see that the native MspA protein might not let a negatively changed molecule like DNA pass through (see if you can see why). (scienceblogs.com)
Suppl1
NCBI3
  • Perhaps the most prominent and widely used NCBI database is PubMed , a continuously updated, public database of more than 18 million citations for biomedical literature. (cdc.gov)
  • Entrez is the search engine that allows searching across all NCBI databases. (cdc.gov)
  • Recently, NCBI embraced these efforts by allowing users to search, annotate, and submit human genome sequence variants to the dbSNP database by using HGVS standard nomenclature ( 11 ). (cdc.gov)
Detection5
  • A rapid approach for phenotype-screening and database independent detection of cSNP/protein polymorphism using mass accuracy precursor alignment. (mpg.de)
  • Currently, there are three basic types of tests to determine if an individual has been infected with SARS-CoV-2: viral nucleic acid (RNA) detection, viral antigen detection, and detection of antibodies to the virus. (medscape.com)
  • Viral tests (nucleic acid or antigen detection tests) are used to assess acute infection, whereas antibody tests provide evidence of prior infection with SARS-CoV-2. (medscape.com)
  • Wooden shafts or calcium alginate swabs may contain substances that inhibit some viruses and nucleic acid detection reactions. (medscape.com)
  • Not only is the primary tumor detection an issue, but in the patient with primary oral cancer, a higher risk exists for the development of undetected secondary lesions. (medscape.com)
Pfam1
  • A non-redundant set of Xpro database contents is also obtained by cross-referencing to the Swiss-Prot/TrEMBL and Pfam databases. (edu.au)
Entities1
  • Our SAEDR and DRIP scores are well correlated with the real-world outcomes of the entities they represent and have demonstrated utility in pharmacovigilance research. (jmir.org)
Clinical4
  • For decades, germline mutations, contained within the heritable genome, and somatic mutations, acquired de novo by breast cancer cells, have been considered as separate research endeavours, and each has unique clinical applications and implications for patient care. (hindawi.com)
  • All research involving human participants had been approved by the authors' Institutional Review Board (IRB) and all clinical investigations had been conducted according to the principles expressed in the Declaration of Helsinki. (researchsquare.com)
  • Because of the increased use of nitrocellulose (NC) by research and clinical laboratories, concern by institutional safety officials has been expressed for the proper disposal of these membranes. (cdc.gov)
  • Exploratory Research in Clinical and Social Pharmacy. (janusinfo.se)
Annotation1
  • 13C isotope-labeled metabolomes allowing for improved compound annotation and relative quantification in liquid chromatography-mass spectrometry-based metabolomic research. (mpg.de)
Human genome1
  • The Human Genome Variation Society (HGVS) has begun a grass-roots effort to compile a list of locus-specific databases (LSDBs), which are curated collections of mutations, often reported with associated phenotypic information ( 10 ). (cdc.gov)
Genetic3
  • In many respects, M.xanthus represents the pioneer model organism (MO) for studying the genetic, biochemical, and mechanistic basis of prokaryotic multicellularity, a topic that has garnered considerable attention due to the significance of biofilms in both basic and applied microbiology research. (syr.edu)
  • 11995 amino acid substitutions from the ClinVar related to genetic diseases, somatic variants from the IARC TP53 and ICGC databases related to human cancers and experimentally evaluated PPARG variants. (lu.se)
  • The etiology of oral cancer, and particularly squamous cell carcinoma, is multifactorial, with the published research suggesting that exposure to tobacco and alcohol coupled with genetic predisposition are major contributors to the disease. (medscape.com)
Model organism3
  • We have developed a novel algorithm (PVP) which augments existing strategies by using the similarity of the patients phenotype to known phenotype-genotype data in human and model organism databases to further rank potential candidate genes. (plos.org)
  • xanthusBase (http://www.xanthusbase.org) is the official model organism database (MOD) for the social bacterium Myxococcus xanthus. (syr.edu)
  • To facilitate its utility, the design of xanthusBase incorporates open-source software, leveraging the cumulative experience made available through the Generic Model Organism Database (GMOD) project, MediaWiki (http://www.mediawiki.org), and dictyBase (http://www.dictybase.org), to create a MOD that is both highly useful and easily navigable. (syr.edu)
Journal1
  • This open-access journal, launched in 2009, aims to provide a "platform for the presentation of novel ideas in database research and biocuration, and aims to help strengthen the bridge between database developers, curators, and users. (duke.edu)
Methods3
  • The chemical methods also enable the generation of altered nucleic acids that are not found in nature, for example peptide nucleic acids. (wikipedia.org)
  • If these services contributed to your research, we appreciate that you make statements in the Acknowledgements section and cite the publication/URL of the customized data analysis services/tools/databases you used in Material and Methods section when you publish your work. (tbi.org.tw)
  • We published most of our in-house methods, tools and databases. (tbi.org.tw)
Sequence3
  • From the inner workings of the cell to the young of a living thing, they contain and provide information via the nucleic acid sequence. (wikipedia.org)
  • AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models. (hep.com.cn)
  • Comprehensive assessment of the quality of Salmonella whole genome sequence data available in public sequence databases using the Salmonella in silico Typing Resource (SISTR). (cdc.gov)
ClinVar1
  • 14,819 benign or pathogenic variants from the ClinVar database. (lu.se)
Processes1
  • Understanding how population-level dynamics contribute to ecosystem-level processes is a primary focus of ecological research and has led to important breakthroughs in the ecology of macroscopic organisms. (osti.gov)
Centre1
  • NS was funded by Wellcome Trust (Grant 100585/Z/12/Z) and the National Institute for Health Research Cambridge Biomedical Research Centre. (plos.org)
Search4
  • Mass spectral search and analysis using the Golm Metabolome Database. (mpg.de)
  • The course also discusses the advantages and disadvantages of different search strategies, tools, and databases. (lu.se)
  • The course consists of a series of lectures that cover available databases relevant to chemistry, search strategies, and relevant search terms within chemistry. (lu.se)
  • Additionally, there is a brief project where participants conduct a preliminary search with an associated search strategy within their research field. (lu.se)
Collection1
  • The underlying framework for this process is a "network of networks": a collection of formal and informal collaborations organized according to location, funding source, or research interests ( 12 ) (see Chapter 7 ). (cdc.gov)
Genes2
  • LCGbase: A Comprehensive Database for Lineage-Based Co-regulated Genes. (openwetware.org)
  • The database currently contains information for 493 983 genes - 351 918 introncontaining genes and 142 065 intron-less genes. (edu.au)
Laboratory2
  • Nucleic acids are also generated within the laboratory, through the use of enzymes (DNA and RNA polymerases) and by solid-phase chemical synthesis. (wikipedia.org)
  • Laboratory Services has continued, in management system (SAMI) database. (who.int)
Studies1
  • Klára is now continuing her studies as a PhD student, making progress in her research at the University of Heidelberg during this academic year. (linkgroup.hu)
Analysis2
  • Please cite the name of the services (customized data analysis services/tools/databases ), our website http//www.tbi.org.tw and the publication of our services. (tbi.org.tw)
  • STR analysis is broadly used in medicine, research and law enforcement - for stem cell transplants, diseases like Huntington's, verifying research cell lines and samples, determining family relationships, and in criminal cases. (nih.gov)
Sequences1
  • Additionally, large data gaps were identified in the Middle East region, as indicated by the lack of current influenza sequences in the database from many countries in the region. (who.int)
Annual2
Data2
  • The UCSC Genome Browser Database has continued to evolve, adding many web-based applications for viewing, manipulating, and analyzing the data ( 8 ). (cdc.gov)
  • Semantic web technologies expand and enrich TOPSAN's content through links to larger sets of related databases, and thus, enable data integration from disparate sources and data mining via conventional query languages. (jcvi.org)
Frontiers1
  • In this issue of Frontiers of Medicine, Dan Liu et al. (hep.com.cn)
Form1
  • These acids are very common in all living things, where they create, encode, and store information in every living cell of every life-form on Earth. (wikipedia.org)
Comprehensive database1
Systematic1
  • The HuGENet "road map" for knowledge synthesis and evaluation defines a cycle that begins with reporting of research results and continues through systematic review and synthesis, grading of evidence, and feedback to research investigators and sponsors ( 13 ). (cdc.gov)