Distributed Sequence Annotation System
Names
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Distributed Sequence Annotation System
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
DAS
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Names
More detailed information about this field from each metasource.
Distributed Sequence Annotation System
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
DAS
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Names
More detailed information about this field from each metasource.
Distributed Sequence Annotation System
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
DAS
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
The Distributed Annotation System (DAS) defines a communication protocol used to exchange annotations on genomic or protein sequences.
Description
More detailed information about this field from each metasource.
The Distributed Annotation System (DAS) defines a communication protocol used to exchange annotations on genomic or protein sequences.
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Webpage:
http://www.biodas.org/documents/spec-1.6.htmlWebpage
More detailed information about this field from each metasource.
http://www.biodas.org/documents/spec-1.6.html
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
The distributed annotation system
PMID: 11667947
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Publications
More detailed information about this field from each metasource.
The distributed annotation system
PMID: 11667947
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
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The distributed annotation system
PubMed citations: 187.
187 articles citing: The distributed annotation system
BrAPI-an application programming interface for plant breeding applications. PMID:30903186
A bedr way of genomic interval processing. PMID:27999613
Integrated Systems for NGS Data Management and Analysis: Open Issues and Available Solutions. PMID:27200084
Data integration in biological research: an overview. PMID:26336651
A reproducible approach to high-throughput biological data acquisition and integration. PMID:26157642
xiNET: cross-link network maps with residue resolution. PMID:25648531
BCCTBbp: the Breast Cancer Campaign Tissue Bank bioinformatics portal. PMID:25332396
A digital repository with an extensible data model for biobanking and genomic analysis management. PMID:25077808
Alignment-Annotator web server: rendering and annotating sequence alignments. PMID:24813445
openSNP--a crowdsourced web resource for personal genomics. PMID:24647222
The Zebrafish GenomeWiki: a crowdsourcing approach to connect the long tail for zebrafish gene annotation. PMID:24578356
NECTAR: a database of codon-centric missense variant annotations. PMID:24297257
Track data hubs enable visualization of user-defined genome-wide annotations on the UCSC Genome Browser. PMID:24227676
Selectome update: quality control and computational improvements to a database of positive selection. PMID:24225318
Web Apollo: a web-based genomic annotation editing platform. PMID:24000942
MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis. PMID:23323883
Automated extraction of reported statistical analyses: towards a logical representation of clinical trial literature. PMID:23304305
Teaching the fundamentals of biological data integration using classroom games. PMID:23300402
iPiG: integrating peptide spectrum matches into genome browser visualizations. PMID:23226516
The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013. PMID:23203882
The Ruby UCSC API: accessing the UCSC genome database using Ruby. PMID:22994508
Updating annotations with the distributed annotation system and the automated sequence annotation pipeline. PMID:22945787
Seqcrawler: biological data indexing and browsing platform. PMID:22827839
A web-based bioinformatics interface applied to the GENOSOJA Project: Databases and pipelines. PMID:22802706
CellBase, a comprehensive collection of RESTful web services for retrieving relevant biological information from heterogeneous sources. PMID:22693220
Relax with CouchDB--into the non-relational DBMS era of bioinformatics. PMID:22609849
Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration. PMID:22517427
Community gene annotation in practice. PMID:22434843
ABrowse--a customizable next-generation genome browser framework. PMID:22222089
Identifying elemental genomic track types and representing them uniformly. PMID:22208806
NONCODE v3.0: integrative annotation of long noncoding RNAs. PMID:22135294
Xanthusbase after five years expands to become Openmods. PMID:22116063
The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications. PMID:21806842
GenExp: an interactive web-based genomic DAS client with client-side data rendering. PMID:21750706
Using BioMart as a framework to manage and query pancreatic cancer data. PMID:21666272
The CD59 family member Leaky/Coiled is required for the establishment of the blood-brain barrier in Drosophila. PMID:21613501
DAS writeback: a collaborative annotation system. PMID:21569281
The Protein Data Bank in Europe (PDBe): bringing structure to biology. PMID:21460450
Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and "resurrected" pseudogenes in the mouse genome. PMID:21460061
UniProt Knowledgebase: a hub of integrated protein data. PMID:21447597
Annotating genes and genomes with DNA sequences extracted from biomedical articles. PMID:21325301
easyDAS: automatic creation of DAS servers. PMID:21244646
PDBe: Protein Data Bank in Europe. PMID:21045060
Ensembl 2011. PMID:21045057
GPCRDB: information system for G protein-coupled receptors. PMID:21045054
The Pancreatic Expression database: 2011 update. PMID:20959292
Next generation models for storage and representation of microbial biological annotation. PMID:20946598
T1DBase: update 2011, organization and presentation of large-scale data sets for type 1 diabetes research. PMID:20937630
Next generation tools for genomic data generation, distribution, and visualization. PMID:20828407
The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*. PMID:20727200
RoBuST: an integrated genomics resource for the root and bulb crop families Apiaceae and Alliaceae. PMID:20691054
Integration and visualization of systems biology data in context of the genome. PMID:20642854
Choosing a genome browser for a Model Organism Database: surveying the maize community. PMID:20627860
Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration. PMID:20525377
Touring Ensembl: a practical guide to genome browsing. PMID:20459808
Meeting report: a workshop on Best Practices in Genome Annotation. PMID:20428316
Visualizing biological data-now and in the future. PMID:20195254
DASMiner: discovering and integrating data from DAS sources. PMID:19919683
Genome-wide end-sequenced BAC resources for the NOD/MrkTac() and NOD/ShiLtJ() mouse genomes. PMID:19909804
Gene expression atlas at the European bioinformatics institute. PMID:19906730
COSMIC (the Catalogue of Somatic Mutations in Cancer): a resource to investigate acquired mutations in human cancer. PMID:19906727
MEROPS: the peptidase database. PMID:19892822
PROSITE, a protein domain database for functional characterization and annotation. PMID:19858104
PDBe: Protein Data Bank in Europe. PMID:19858099
The IntAct molecular interaction database in 2010. PMID:19850723
MetaTM - a consensus method for transmembrane protein topology prediction. PMID:19785723
XMPP for cloud computing in bioinformatics supporting discovery and invocation of asynchronous web services. PMID:19732427
aGEM: an integrative system for analyzing spatial-temporal gene-expression information. PMID:19592395
Annotation and visualization of endogenous retroviral sequences using the Distributed Annotation System (DAS) and eBioX. PMID:19534743
OmicBrowse: a Flash-based high-performance graphics interface for genomic resources. PMID:19528066
DASMIweb: online integration, analysis and assessment of distributed protein interaction data. PMID:19502495
UTGB toolkit for personalized genome browsers. PMID:19497937
Databases and QSAR for cancer research. PMID:19458762
Systems-wide analysis of a phosphatase knock-down by quantitative proteomics and phosphoproteomics. PMID:19429919
DASMI: exchanging, annotating and assessing molecular interaction data. PMID:19420069
BioMart Central Portal--unified access to biological data. PMID:19420058
The FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation. PMID:19374775
DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources. PMID:19344873
Integrating T-cell epitope annotations with sequence and structural information using DAS. PMID:19238238
Collaborative text-annotation resource for disease-centered relation extraction from biomedical text. PMID:19232400
Annotations for all by all - the BioSapiens network. PMID:19232072
Jalview Version 2--a multiple sequence alignment editor and analysis workbench. PMID:19151095
BioMart--biological queries made easy. PMID:19144180
Genotype-phenotype databases: challenges and solutions for the post-genomic era. PMID:19065136
Motif discovery in promoters of genes co-localized and co-expressed during myeloid cells differentiation. PMID:19059999
SUPERFAMILY--sophisticated comparative genomics, data mining, visualization and phylogeny. PMID:19036790
Ensembl 2009. PMID:19033362
Genome and proteome annotation: organization, interpretation and integration. PMID:19019817
SMART 6: recent updates and new developments. PMID:18978020
dictyBase--a Dictyostelium bioinformatics resource update. PMID:18974179
Human Proteinpedia: a unified discovery resource for proteomics research. PMID:18948298
HGVbaseG2P: a central genetic association database. PMID:18948288
MAPU 2.0: high-accuracy proteomes mapped to genomes. PMID:18948283
Bluejay 1.0: genome browsing and comparison with rich customization provision and dynamic resource linking. PMID:18940007
The Protein Feature Ontology: a tool for the unification of protein feature annotations. PMID:18936051
OntoDas - a tool for facilitating the construction of complex queries to the Gene Ontology. PMID:18925933
Bringing Web 2.0 to bioinformatics. PMID:18842678
Introducing meta-services for biomedical information extraction. PMID:18834497
Advanced genomic data mining. PMID:18818719
Integrating biological data--the Distributed Annotation System. PMID:18673527
MSDmotif: exploring protein sites and motifs. PMID:18637174
Experience using web services for biological sequence analysis. PMID:18621748
A gene wiki for community annotation of gene function. PMID:18613750
GMODWeb: a web framework for the Generic Model Organism Database. PMID:18570664
ISPIDER Central: an integrated database web-server for proteomics. PMID:18440977
TarO: a target optimisation system for structural biology. PMID:18385152
Ancora: a web resource for exploring highly conserved noncoding elements and their association with developmental regulatory genes. PMID:18279518
GSE: a comprehensive database system for the representation, retrieval, and analysis of microarray data. PMID:18229714
The Pfam protein families database. PMID:18039703
CoryneCenter - an online resource for the integrated analysis of corynebacterial genome and transcriptome data. PMID:18034885
Ensembl 2008. PMID:18000006
CanGEM: mining gene copy number changes in cancer. PMID:17932056
FunSimMat: a comprehensive functional similarity database. PMID:17932054
Integrating sequence and structural biology with DAS. PMID:17850653
Apollo2Go: a web service adapter for the Apollo genome viewer to enable distributed genome annotation. PMID:17760972
New tools and expanded data analysis capabilities at the Protein Structure Prediction Center. PMID:17705273
Celsius: a community resource for Affymetrix microarray data. PMID:17570842
iHOP web services. PMID:17485473
CARGO: a web portal to integrate customized biological information. PMID:17483515
BioWMS: a web-based Workflow Management System for bioinformatics. PMID:17430564
ProServer: a simple, extensible Perl DAS server. PMID:17237073
CSRDB: a small RNA integrated database and browser resource for cereals. PMID:17169981
VectorBase: a home for invertebrate vectors of human pathogens. PMID:17145709
xGDB: open-source computational infrastructure for the integrated evaluation and analysis of genome features. PMID:17116260
Xanthusbase: adapting wikipedia principles to a model organism database. PMID:17090585
SISYPHUS--structural alignments for proteins with non-trivial relationships. PMID:17068077
yrGATE: a web-based gene-structure annotation tool for the identification and dissemination of eukaryotic genes. PMID:16859520
Predicting deleterious nsSNPs: an analysis of sequence and structural attributes. PMID:16630345
The proteome: structure, function and evolution. PMID:16524832
The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries. PMID:16507094
The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information. PMID:16381971
PRIDE: a public repository of protein and peptide identifications for the proteomics community. PMID:16381953
The PeptideAtlas project. PMID:16381952
EMAGE: a spatial database of gene expression patterns during mouse embryo development. PMID:16381949
Ensembl 2006. PMID:16381931
CryptoDB: a Cryptosporidium bioinformatics resource update. PMID:16381902
Gene3D: modelling protein structure, function and evolution. PMID:16381865
Adding some SPICE to DAS. PMID:16204122
Genome annotation of Anopheles gambiae using mass spectrometry-derived data. PMID:16171517
FACT--a framework for the functional interpretation of high-throughput experiments. PMID:15985174
Integrating protein annotation resources through the Distributed Annotation System. PMID:15980514
Databases and information integration for the Medicago truncatula genome and transcriptome. PMID:15888676
The institute for genomic research Osa1 rice genome annotation database. PMID:15888674
Statistical Viewer: a tool to upload and integrate linkage and association data as plots displayed within the Ensembl genome browser. PMID:15826305
Comparative promoter region analysis powered by CORG. PMID:15723697
Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry. PMID:15642101
The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes. PMID:15608288
T1DBase, a community web-based resource for type 1 diabetes research. PMID:15608258
The European Bioinformatics Institute's data resources: towards systems biology. PMID:15608238
Ensembl 2005. PMID:15608235
WormBase: a comprehensive data resource for Caenorhabditis biology and genomics. PMID:15608221
Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation. PMID:15608211
Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease genetics. PMID:15601538
DNA methylation profiling of the human major histocompatibility complex: a pilot study for the human epigenome project. PMID:15550986
C-type lectin-like domains in Fugu rubripes. PMID:15285787
eL-DASionator: an LDAS upload file generator. PMID:15132760
The otter annotation system. PMID:15123593
The Ensembl Web site: mechanics of a genome browser. PMID:15123591
BioBuilder as a database development and functional annotation platform for proteins. PMID:15099404
Pegasys: software for executing and integrating analyses of biological sequences. PMID:15096276
An overview of Ensembl. PMID:15078858
Database development in toxicogenomics: issues and efforts. PMID:15033600
EnsMart: a generic system for fast and flexible access to biological data. PMID:14707178
EICO (Expression-based Imprint Candidate Organizer): finding disease-related imprinted genes. PMID:14681478
HGVbase: a curated resource describing human DNA variation and phenotype relationships. PMID:14681471
Human protein reference database as a discovery resource for proteomics. PMID:14681466
Ensembl 2004. PMID:14681459
Nematode.net: a tool for navigating sequences from parasitic and free-living nematodes. PMID:14681448
RNAiDB and PhenoBlast: web tools for genome-wide phenotypic mapping projects. PMID:14681444
CADRE: the Central Aspergillus Data REpository. PMID:14681443
The Genomic Threading Database: a comprehensive resource for structural annotations of the genomes from key organisms. PMID:14681393
A knowledge discovery object model API for Java. PMID:14583100
GANESH: software for customized annotation of genome regions. PMID:12952886
DNannotator: Annotation software tool kit for regional genomic sequences. PMID:12824405
An integrated computational pipeline and database to support whole-genome sequence annotation. PMID:12537570
Strategies and tools for whole-genome alignments. PMID:12529308
The TIGR rice genome annotation resource: annotating the rice genome and creating resources for plant biologists. PMID:12519988
ASAP, a systematic annotation package for community analysis of genomes. PMID:12519969
The SNP Consortium website: past, present and future. PMID:12519964
CORG: a database for COmparative Regulatory Genomics. PMID:12519946
The UCSC Genome Browser Database. PMID:12519945
The European Bioinformatics Institute's data resources. PMID:12519944
Ensembl 2002: accommodating comparative genomics. PMID:12519943
The Bioperl toolkit: Perl modules for the life sciences. PMID:12368254
The generic genome browser: a building block for a model organism system database. PMID:12368253
The human genome browser at UCSC. PMID:12045153
The Ensembl genome database project. PMID:11752248
Tags:
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More detailed information about this field from each metasource.
annotation
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
deoxyribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
genome
metasource: Fairsharing.org
version: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Tags
More detailed information about this field from each metasource.
annotation
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
deoxyribonucleic acid
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
genome
metasource: Fairsharing.orgversion: FAIRsharing.org: DAS; Distributed Sequence Annotation System; DOI: https://doi.org/10.25504/FAIRsharing.mcgj5b; Last edited: Jan. 8, 2019, 1:28 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
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