The Sequence Ontology: a tool for the unification of genome annotations

scientific article

The Sequence Ontology: a tool for the unification of genome annotations is …
instance of (P31):
scholarly articleQ13442814

External links are
P6179Dimensions Publication ID1026484271
P356DOI10.1186/GB-2005-6-5-R44
P3181OpenCitations bibliographic resource ID854595
P932PMC publication ID1175956
P698PubMed publication ID15892872
P5875ResearchGate publication ID7848259

P50authorSuzanna LewisQ7650732
Richard M. DurbinQ4583003
Lincoln SteinQ6551037
Michael AshburnerQ6828277
Christopher J. MungallQ20746118
Mark YandellQ30112423
Karen EilbeckQ30112437
P2860cites workSaccharomyces genome database: underlying principles and organisationQ34569310
The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and communityQ35158851
The Drosophila melanogaster tropomyosin II gene produces multiple proteins by use of alternative tissue-specific promoters and alternative splicingQ36844420
The EMBL Nucleotide Sequence Database.Q55716916
Relations in biomedical ontologiesQ19671539
Annotation of the Drosophila melanogaster euchromatic genome: a systematic reviewQ21092890
WormBase: network access to the genome and biology of Caenorhabditis elegansQ24608819
The Bioperl toolkit: Perl modules for the life sciencesQ24682183
An integrated computational pipeline and database to support whole-genome sequence annotationQ24803526
Basic local alignment search toolQ25938991
Creating the gene ontology resource: design and implementationQ29614366
Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humansQ29615184
DDBJ in the stream of various biological dataQ30886358
The Drosophila melanogaster genomeQ33972954
P433issue5
P407language of work or nameEnglishQ1860
P921main subjectontologyQ324254
Sequence types and features ontologyQ81661803
genome annotationQ19753316
P304page(s)R44
P577publication date2005-01-01
P1433published inGenome BiologyQ5533480
P1476titleThe Sequence Ontology: a tool for the unification of genome annotations
P478volume6

Reverse relations

cites work (P2860)
Q28237450A Chado case study: an ontology-based modular schema for representing genome-associated biological information
Q35710705A Methodology for the Development of RESTful Semantic Web Services for Gene Expression Analysis
Q92571529A Novel Gene Underlies Bleomycin-Response Variation in Caenorhabditis elegans
Q34457346A UML profile for the OBO relation ontology.
Q34031529A beginner's guide to eukaryotic genome annotation
Q38371212A bioinformatics roadmap for the human vaccines project
Q34383218A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools
Q33552496A geographically-diverse collection of 418 human gut microbiome pathway genome databases
Q99595173A large-scale genome-lipid association map guides lipid identification
Q36300617A rare IL33 loss-of-function mutation reduces blood eosinophil counts and protects from asthma
Q28077631A review of the new HGNC gene family resource
Q31116538A scientist's guide for submitting data to ZFIN.
Q34137831A semantic problem solving environment for integrative parasite research: identification of intervention targets for Trypanosoma cruzi.
Q34176647A semantic web framework to integrate cancer omics data with biological knowledge
Q28846090A standard variation file format for human genome sequences
Q55070315A statistical approach to identify, monitor, and manage incomplete curated data sets.
Q38504346A tutorial on protein ontology resources for proteomic studies
Q83227190A unicellular relative of animals generates a layer of polarized cells by actomyosin-dependent cellularization
Q34086044A unified framework for managing provenance information in translational research
Q37607868A variant by any name: quantifying annotation discordance across tools and clinical databases
Q31164454ATGC transcriptomics: a web-based application to integrate, explore and analyze de novo transcriptomic data
Q40724335Acclimation of Saccharomyces cerevisiae to low temperature: a chemostat-based transcriptome analysis
Q57455605Adapting crowdsourced clinical cancer curation in CIViC to the ClinGen minimum variant level data community-driven standards
Q28744204An open annotation ontology for science on web 3.0
Q38400330Annotation of rule-based models with formal semantics to enable creation, analysis, reuse and visualization
Q33445474Apollo: a community resource for genome annotation editing
Q28709527Applying semantic web technologies for phenome-wide scan using an electronic health record linked Biobank
Q33955790Applying the functional abnormality ontology pattern to anatomical functions
Q35254350Araport: the Arabidopsis information portal
Q34849651Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database
Q24284893BSRD: a repository for bacterial small regulatory RNA
Q92318329Beyond sequencing: re-visiting annotations for PJL as a test case
Q28762988Bio-ontologies: current trends and future directions
Q38478807BioJS DAGViewer: A reusable JavaScript component for displaying directed graphs
Q45952456BioMake: a GNU make-compatible utility for declarative workflow management.
Q33686656BioXSD: the common data-exchange format for everyday bioinformatics web services
Q37079445Bioinformatics and cancer research: building bridges for translational research
Q28743860Bovine Genome Database: supporting community annotation and analysis of the Bos taurus genome
Q36399450CHOmine: an integrated data warehouse for CHO systems biology and modeling.
Q29178984CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer
Q38656366COGNATE: comparative gene annotation characterizer.
Q40599031CSN and CAVA: variant annotation tools for rapid, robust next-generation sequencing analysis in the clinical setting
Q21183907Calling on a million minds for community annotation in WikiProteins
Q31060248Chado use case: storing genomic, genetic and breeding data of Rosaceae and Gossypium crops in Chado
Q40843083Choice of transcripts and software has a large effect on variant annotation
Q34668216Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases
Q41315076Clonal evolution of chemotherapy-resistant urothelial carcinoma.
Q36339848Combining clinical and genomics queries using i2b2 - Three methods
Q38282891Computational approaches to interpreting genomic sequence variation
Q38013124Computational tools for metabolic engineering.
Q30485577Concept annotation in the CRAFT corpus
Q46846282Consensus coding sequence (CCDS) database: a standardized set of human and mouse protein-coding regions supported by expert curation
Q28602211Consent Codes: Upholding Standard Data Use Conditions
Q35840926Considerations for creating and annotating the budding yeast Genome Map at SGD: a progress report
Q28079668Consolidating and Exploring Antibiotic Resistance Gene Data Resources
Q30054719Construction of an annotated corpus to support biomedical information extraction
Q30932533Construction of an ortholog database using the semantic web technology for integrative analysis of genomic data
Q38431459Context Is Everything: Harmonization of Critical Food Microbiology Descriptors and Metadata for Improved Food Safety and Surveillance
Q34463864CooVar: co-occurring variant analyzer
Q38372012Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles
Q37661727CottonGen: a genomics, genetics and breeding database for cotton research
Q34481688Cross-organism analysis using InterMine
Q34020884Cross-product extensions of the Gene Ontology
Q27477939Curation of viral genomes: challenges, applications and the way forward
Q37661935CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes
Q92358532Cyberinfrastructure and resources to enable an integrative approach to studying forest trees
Q24567711DECIPHER: database for the interpretation of phenotype-linked plausibly pathogenic sequence and copy-number variation
Q31147210DNA Data Bank of Japan.
Q34021056Data extraction, transformation, and dissemination through ZFIN.
Q38059440Database tools in genetic diseases research
Q28710183DbVar and DGVa: public archives for genomic structural variation
Q33994879Digital expression profiling of the compartmentalized translatome of Purkinje neurons
Q38438398Discovery of Organophosphate Resistance-Related Genes Associated With Well-known Resistance Mechanisms of Plutella xylostella (L.) (Lepidoptera: Plutellidae) by RNA-Seq
Q31090606DiscoverySpace: an interactive data analysis application
Q35674064Disease-associated variants in different categories of disease located in distinct regulatory elements
Q30597346EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats
Q28603557Emerging semantics to link phenotype and environment
Q28253062Ensembl 2012
Q28280494Ensembl 2013
Q24567767Ensembl 2014
Q31149670Ensembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomic Data.
Q45944039Entity recognition in the biomedical domain using a hybrid approach.
Q33896150Ergatis: a web interface and scalable software system for bioinformatics workflows
Q89777824Erythrogene: a database for in-depth analysis of the extensive variation in 36 blood group systems in the 1000 Genomes Project
Q34103676Evolution of the Sequence Ontology terms and relationships
Q34095496Evolutionary informatics: unifying knowledge about the diversity of life
Q34073150Exact score distribution computation for ontological similarity searches.
Q57066262Exhaustive non-synonymous variants functionality prediction enables high resolution characterization of the neurofibromin architecture
Q58740519Exome sequencing study in patients with multiple sclerosis reveals variants associated with disease course
Q33690705Exploring zebrafish genomic, functional and phenotypic data using ZFIN
Q36793712Extending gene ontology in the context of extracellular RNA and vesicle communication
Q47143201Extension modules for storage, visualization and querying of genomic, genetic and breeding data in Tripal databases.
Q37001937FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation
Q90482590FHIR Genomics: enabling standardization for precision medicine use cases
Q28681065FYPO: the fission yeast phenotype ontology
Q28604234Facilitating collaboration in rare genetic disorders through effective matchmaking in DECIPHER
Q42957758Fine-grained annotation and classification of de novo predicted LTR retrotransposons.
Q38602535First-generation annotations for the fathead minnow (Pimephales promelas) genome
Q64444047Flexible and scalable diagnostic filtering of genomic variants using G2P with Ensembl VEP
Q28287930FlyBase : a database for the Drosophila research community
Q25257918FlyBase: anatomical data, images and queries
Q35179273FlyBase: genomes by the dozen
Q36570577FlyMine: an integrated database for Drosophila and Anopheles genomics
Q91843905Formal axioms in biomedical ontologies improve analysis and interpretation of associated data
Q33307823Framework for a protein ontology
Q33569161From IMGT-ONTOLOGY to IMGT/LIGMotif: the IMGT standardized approach for immunoglobulin and T cell receptor gene identification and description in large genomic sequences
Q51792758From SNPs to pathways: Biological interpretation of type 2 diabetes (T2DM) genome wide association study (GWAS) results
Q90618574Functional rare variants influence the clinical response to anti-TNF therapy in Crohn's disease
Q28647337GFVO: the Genomic Feature and Variation Ontology
Q34248046GIDL: a rule based expert system for GenBank Intelligent Data Loading into the Molecular Biodiversity Database
Q60044018GLUE: a flexible software system for virus sequence data
Q28740943GONUTS: the Gene Ontology Normal Usage Tracking System
Q33322219GORouter: an RDF model for providing semantic query and inference services for Gene Ontology and its associations
Q35926437Gene Model Annotations for Drosophila melanogaster: The Rule-Benders
Q29616846Gene Ontology Consortium: going forward
Q24595108Genenames.org: the HGNC resources in 2013
Q58095881Genetic Analysis of 400 Patients Refines Understanding and Implicates a New Gene in Atypical Hemolytic Uremic Syndrome
Q90190312Genetic Diversity, Population Structure and Linkage Disequilibrium Assessment among International Sunflower Breeding Collections
Q40953669Genetic diagnosis of Mendelian disorders via RNA sequencing
Q33532340GenoCAD for iGEM: a grammatical approach to the design of standard-compliant constructs
Q34474315GenoLIB: a database of biological parts derived from a library of common plasmid features
Q91839202GenoSurf: metadata driven semantic search system for integrated genomic datasets
Q25255306Genolevures complete genomes provide data and tools for comparative genomics of hemiascomycetous yeasts
Q52326284Genome Annotation Generator: a simple tool for generating and correcting WGS annotation tables for NCBI submission.
Q34333165Genome analysis of a major urban malaria vector mosquito, Anopheles stephensi.
Q34657673Genome and proteome annotation: organization, interpretation and integration
Q34646956Genome-scale analyses of butanol tolerance in Saccharomyces cerevisiae reveal an essential role of protein degradation
Q90162297Genomic Mutation Identification in Mice Using Illumina Sequencing and Linux-Based Computational Methods
Q34845912Genomic analysis of natural selection and phenotypic variation in high-altitude Mongolians
Q36479375Genomic variant annotation and prioritization with ANNOVAR and wANNOVAR.
Q35007191Genomics. Genome project standards in a new era of sequencing
Q41887482Global expression studies in baker's yeast reveal target genes for the improvement of industrially-relevant traits: the cases of CAF16 and ORC2.
Q37661818Gramene 2013: comparative plant genomics resources.
Q35020003Guidelines for the nomenclature of genetic elements in tunicate genomes
Q37202603Génolevures: protein families and synteny among complete hemiascomycetous yeast proteomes and genomes
Q30943411HIGH-PRECISION BIOLOGICAL EVENT EXTRACTION: EFFECTS OF SYSTEM AND OF DATA.
Q60933642Harnessing formal concepts of biological mechanism to analyze human disease
Q36359508Histoimmunogenetics Markup Language 1.0: Reporting next generation sequencing-based HLA and KIR genotyping
Q38986048Human skin color is influenced by an intergenic DNA polymorphism regulating transcription of the nearby BNC2 pigmentation gene
Q46205278IMGT, the International ImMunoGeneTics Information System for Immunoinformatics : methods for querying IMGT databases, tools, and web resources in the context of immunoinformatics
Q35981749IMGT-ONTOLOGY 2012.
Q35575833INOH: ontology-based highly structured database of signal transduction pathways
Q37605199Identification of RAN1 orthologue associated with sex determination through whole genome sequencing analysis in fig (Ficus carica L.).
Q34468556Identification of a large set of rare complete human knockouts
Q28646179Identification of genomic regions associated with female fertility in Danish Jersey using whole genome sequence data
Q28730732Improving integrative searching of systems chemical biology data using semantic annotation
Q35903346Improving the Sequence Ontology terminology for genomic variant annotation
Q56976298Infrastructure for distributed protein annotation
Q28765967Initial implementation of a comparative data analysis ontology
Q24648075Integrating biological data--the Distributed Annotation System
Q30990708Integration of extracellular RNA profiling data using metadata, biomedical ontologies and Linked Data technologies
Q28704907InterMOD: integrated data and tools for the unification of model organism research
Q30571380InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data
Q38614473Interpreting functional effects of coding variants: challenges in proteome-scale prediction, annotation and assessment
Q41889156Involvement of vacuolar sequestration and active transport in tolerance of Saccharomyces cerevisiae to hop iso-alpha-acids.
Q34412573Jannovar: a java library for exome annotation
Q38671499Knowledge Discovery in Biological Databases for Revealing Candidate Genes Linked to Complex Phenotypes
Q58034893LNCipedia 5: towards a reference set of human long non-coding RNAs
Q34468335LTRsift: a graphical user interface for semi-automatic classification and postprocessing of de novo detected LTR retrotransposons
Q55003953Landscape of copy number variations in Bos taurus: individual - and inter-breed variability.
Q28657683Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters
Q21145689Large-scale trends in the evolution of gene structures within 11 animal genomes
Q34468572Large-scale whole-genome sequencing of the Icelandic population
Q38412597Linking genome annotation projects with genetic disorders using ontologies
Q64078651Long-read based assembly and synteny analysis of a reference Drosophila subobscura genome reveals signatures of structural evolution driven by inversions recombination-suppression effects
Q96134004Longitudinal Analysis of Gene Expression Changes During Cervical Carcinogenesis Reveals Potential Therapeutic Targets
Q34109062MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
Q29615951MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes
Q24814722MAO: a Multiple Alignment Ontology for nucleic acid and protein sequences
Q30477289MIMAS: an innovative tool for network-based high density oligonucleotide microarray data management and annotation
Q99544721Machado: Open source genomics data integration framework
Q38597010Mechanisms underlying human genetic diversity: consequence for anti-graft antibody responses.
Q35037198Meeting report of the RNA Ontology Consortium January 8-9, 2011.
Q58743081MetaHCR: a web-enabled metagenome data management system for hydrocarbon resources
Q90376401MiR-210-3p-EphrinA3-PI3K/AKT axis regulates the progression of oral cancer
Q33423205Modeling genomic data with type attributes, balancing stability and maintainability
Q21145352Modeling structure-function relationships in synthetic DNA sequences using attribute grammars
Q38371715Mouse Genome Informatics (MGI) Resource: Genetic, Genomic, and Biological Knowledgebase for the Laboratory Mouse
Q34249896Mutation extraction tools can be combined for robust recognition of genetic variants in the literature
Q28743300Next generation models for storage and representation of microbial biological annotation
Q91150115OGER++: hybrid multi-type entity recognition
Q33904098OMIT: dynamic, semi-automated ontology development for the microRNA domain
Q31095840OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data
Q61805925One tool to find them all: a case of data integration and querying in a distributed LIMS platform
Q33219636Ontologies and semantic data integration
Q115715393Ontologies4Chem: the landscape of ontologies in chemistry
Q26851445Ontology application and use at the ENCODE DCC
Q95792964Ontology design patterns to disambiguate relations between genes and gene products in GENIA
Q38462967Ontology-based cross-species integration and analysis of Saccharomyces cerevisiae phenotypes
Q36278942Opportunities and challenges of whole-genome and -exome sequencing.
Q36406210Opportunities for text mining in the FlyBase genetic literature curation workflow
Q89531829Organizing genome engineering for the gigabase scale
Q28652806Organizing knowledge to enable personalization of medicine in cancer
Q92928205Osteogenesis imperfecta in a male holstein calf associated with a possible oligogenic origin
Q36086743PDON: Parkinson's disease ontology for representation and modeling of the Parkinson's disease knowledge domain
Q38502447PLIO: an ontology for formal description of protein-ligand interactions
Q64104389PamulDB: a comprehensive genomic resource for the study of human- and animal-pathogenic Pasteurella multocida
Q28743743ParameciumDB in 2011: new tools and new data for functional and comparative genomics of the model ciliate Paramecium tetraurelia
Q24675479ParameciumDB: a community resource that integrates the Paramecium tetraurelia genome sequence with genetic data
Q98394634Patterns of DNA variation between the autosomes, the X chromosome and the Y chromosome in Bos taurus genome
Q92148977Pergola-web: a web server for the visualization and analysis of longitudinal behavioral data using repurposed genomics tools and standards
Q34445769PomBase 2015: updates to the fission yeast database
Q56888716PomBase: The Scientific Resource for Fission Yeast
Q34228886PomBase: a comprehensive online resource for fission yeast
Q98286407Population-scale proteome variation in human induced pluripotent stem cells
Q33242801Positive selection, relaxation, and acceleration in the evolution of the human and chimp genome
Q28655404Preserving sequence annotations across reference sequences
Q36341565Prioritisation of structural variant calls in cancer genomes
Q34033294Prioritizing disease-linked variants, genes, and pathways with an interactive whole-genome analysis pipeline
Q34110361ProKinO: an ontology for integrative analysis of protein kinases in cancer
Q27008198Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative
Q57459849ProxECAT: Proxy External Controls Association Test. A new case-control gene region association test using allele frequencies from public controls
Q55272055QTLTableMiner++: semantic mining of QTL tables in scientific articles.
Q33411561Quantitative measures for the management and comparison of annotated genomes
Q34718350REDfly 2.0: an integrated database of cis-regulatory modules and transcription factor binding sites in Drosophila
Q47098676RNAStructuromeDB: A genome-wide database for RNA structural inference
Q33854345Rare Variant Analysis of Human and Rodent Obesity Genes in Individuals with Severe Childhood Obesity
Q58547155Rare truncating variants in the sarcomeric protein titin associate with familial and early-onset atrial fibrillation
Q97522724Redefining fundamental concepts of transcription initiation in bacteria
Q35062314RefSeq microbial genomes database: new representation and annotation strategy
Q33679454Relations as patterns: bridging the gap between OBO and OWL
Q34029859Representing annotation compositionality and provenance for the Semantic Web.
Q94545338Review: Long non-coding RNA in livestock
Q47140251Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families
Q24612354Rfam: Wikipedia, clans and the "decimal" release
Q47397547SAPP: functional genome annotation and analysis through a semantic framework using FAIR principles
Q35859936SBOL Visual: A Graphical Language for Genetic Designs
Q39520922SNiPA: an interactive, genetic variant-centered annotation browser
Q33584880SOBA: sequence ontology bioinformatics analysis
Q30570244Semantic integration of gene expression analysis tools and data sources using software connectors
Q36054995Semantic integration of physiology phenotypes with an application to the Cellular Phenotype Ontology
Q57280061Sequence Alterations of Cortical Genes Linked to Individual Connectivity of the Human Brain
Q35548929Sequence variants from whole genome sequencing a large group of Icelanders
Q33786392Sequence variants in ARHGAP15, COLQ and FAM155A associate with diverticular disease and diverticulitis
Q52544730Settling the score: variant prioritization and Mendelian disease.
Q28678654Silicon era of carbon-based life: application of genomics and bioinformatics in crop stress research
Q30491286SilkPathDB: a comprehensive resource for the study of silkworm pathogens
Q33303926Simplified ontologies allowing comparison of developmental mammalian gene expression
Q36454142SmedGD: the Schmidtea mediterranea genome database
Q31096686SoFIA: a data integration framework for annotating high-throughput datasets
Q31140983Somatic cancer variant curation and harmonization through consensus minimum variant level data
Q33842266Standard biological parts knowledgebase
Q37037777Strategies for reliable exploitation of evolutionary concepts in high throughput biology.
Q41275372Syntool: A Novel Region-Based Intolerance Score to Single Nucleotide Substitution for Synonymous Mutations Predictions Based on 123,136 Individuals
Q33441777TGF-beta signaling proteins and the Protein Ontology
Q33331986Terminologies for text-mining; an experiment in the lipoprotein metabolism domain
Q28711491Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR
Q53838636Textpresso Central: a customizable platform for searching, text mining, viewing, and curating biomedical literature.
Q31151193ThaleMine: A Warehouse for Arabidopsis Data Integration and Discovery
Q38505668The ANISEED database: digital representation, formalization, and elucidation of a chordate developmental program.
Q59638516The BioLexicon: a large-scale terminological resource for biomedical text mining
Q27987775The BioPAX community standard for pathway data sharing
Q27062312The Chemical Information Ontology: provenance and disambiguation for chemical data on the biological semantic web
Q37661947The Database of Genomic Variants: a curated collection of structural variation in the human genome.
Q36722588The Disease Portals, disease-gene annotation and the RGD disease ontology at the Rat Genome Database
Q91105657The Empusa code generator and its application to GBOL, an extendable ontology for genome annotation
Q25257646The Gene Ontology (GO) project in 2006
Q24649653The Gene Ontology project in 2008
Q28685216The Growing Importance of CNVs: New Insights for Detection and Clinical Interpretation
Q28603410The Matchmaker Exchange API: automating patient matching through the exchange of structured phenotypic and genotypic profiles
Q35630854The Mouse Genome Database (MGD): comprehensive resource for genetics and genomics of the laboratory mouse
Q24616724The Mouse Genome Database (MGD): premier model organism resource for mammalian genomics and genetics
Q38989970The Mouse Genomes Project: a repository of inbred laboratory mouse strain genomes
Q24655567The NIFSTD and BIRNLex vocabularies: building comprehensive ontologies for neuroscience
Q36010436The Non-Coding RNA Ontology (NCRO): a comprehensive resource for the unification of non-coding RNA biology
Q36368053The Ontology for Parasite Lifecycle (OPL): towards a consistent vocabulary of lifecycle stages in parasitic organisms
Q24658623The Orthology Ontology: development and applications
Q28829147The Proteasix Ontology
Q34860468The Protein Feature Ontology: a tool for the unification of protein feature annotations
Q43256731The RNA Ontology Consortium: an open invitation to the RNA community
Q42554061The RNA structure alignment ontology
Q34423743The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology.
Q91590409The Transcriptomic Toolbox: Resources for Interpreting Large Gene Expression Data within a Precision Medicine Context for Metabolic Disease Atherosclerosis
Q49796505The VAAST Variant Prioritizer (VVP): ultrafast, easy to use whole genome variant prioritization tool.
Q28658542The Zebrafish GenomeWiki: a crowdsourcing approach to connect the long tail for zebrafish gene annotation
Q58587083The Zebrafish Information Network: new support for non-coding genes, richer Gene Ontology annotations and the Alliance of Genome Resources
Q37556869The Zebrafish Model Organism Database: new support for human disease models, mutation details, gene expression phenotypes and searching
Q47106498The bacterial interlocked process ONtology (BiPON): a systemic multi-scale unified representation of biological processes in prokaryotes
Q36969864The comprehensive antibiotic resistance database.
Q37503313The development of non-coding RNA ontology
Q48347170The druggable genome and support for target identification and validation in drug development.
Q49279959The genome sequence of sweet cherry (Prunus avium) for use in genomics-assisted breeding.
Q28740529The modENCODE Data Coordination Center: lessons in harvesting comprehensive experimental details
Q30888006The ontology of biological sequences
Q34022247The representation of protein complexes in the Protein Ontology (PRO).
Q28607224The role of ontologies in biological and biomedical research: a functional perspective
Q30485603The use of web ontology languages and other semantic web tools in drug discovery
Q46713825Thorough analysis of unorthodox ABO deletions called by the 1000 Genomes project.
Q34810712Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges
Q33393991Towards a semi-automatic functional annotation tool based on decision-tree techniques
Q34974763TparvaDB: a database to support Theileria parva vaccine development
Q58738631Transcriptomic and genomic profiling of early-stage ovarian carcinomas associated with histotype and overall survival
Q54981021Translational Bioinformatics: At the Interface of Genomics and Quantitative Genetics
Q28662126Tripal v1.1: a standards-based toolkit for construction of online genetic and genomic databases
Q92066016Tripal v3: an ontology-based toolkit for construction of FAIR biological community databases
Q28652403TypOn: the microbial typing ontology
Q35887803UCSC Data Integrator and Variant Annotation Integrator
Q21284216Understanding and using the meaning of statements in a bio-ontology: recasting the Gene Ontology in OWL
Q90025312Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API
Q35985522Use of semantic workflows to enhance transparency and reproducibility in clinical omics
Q30808420Using VAAST to Identify Disease-Associated Variants in Next-Generation Sequencing Data
Q28751723Using semantic web rules to reason on an ontology of pseudogenes
Q38384433Using semantic web technologies to annotate and align microarray designs.
Q40200889VAGrENT: Variation Annotation Generator
Q34281023VARIANT: Command Line, Web service and Web interface for fast and accurate functional characterization of variants found by Next-Generation Sequencing
Q35895776VariOtator, a Software Tool for Variation Annotation with the Variation Ontology.
Q35408646VariSNP, a benchmark database for variations from dbSNP.
Q28659580Variation Ontology for annotation of variation effects and mechanisms
Q28710506VarioML framework for comprehensive variation data representation and exchange
Q37701247Visualization of multiple alignments, phylogenies and gene family evolution
Q28757555Web GIS in practice VI: a demo playlist of geo-mashups for public health neogeographers
Q40015281Weighting sequence variants based on their annotation increases power of whole-genome association studies
Q39346136When transcriptome meets metabolome: fast cellular responses of yeast to sudden relief of glucose limitation.
Q33762970Whole genome sequencing and imputation in isolated populations identify genetic associations with medically-relevant complex traits
Q35985382ZFIN, The zebrafish model organism database: Updates and new directions
Q24614389ZFIN: enhancements and updates to the Zebrafish Model Organism Database
Q47302588bioalcidae, samjs and vcffilterjs: object-oriented formatters and filters for bioinformatics files
Q42062699easyDAS: automatic creation of DAS servers
Q92908769fagin: synteny-based phylostratigraphy and finer classification of young genes
Q35995136g:Profiler-a web server for functional interpretation of gene lists (2016 update)
Q92776101gFACs: Gene Filtering, Analysis, and Conversion to Unify Genome Annotations Across Alignment and Gene Prediction Frameworks
Q36264743miRNA Nomenclature: A View Incorporating Genetic Origins, Biosynthetic Pathways, and Sequence Variants.
Q34073658modMine: flexible access to modENCODE data
Q33600729phiSITE: database of gene regulation in bacteriophages
Q35679354toxoMine: an integrated omics data warehouse for Toxoplasma gondii systems biology research.

Search more.