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The Protein Information Resource: an integrated public resource of functional annotation of proteins

C. H. Wu
<span title="2002-01-01">2002</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Protein Information Resource (PIR) serves as an integrated public resource of functional annotation of protein data to support genomic/proteomic research and scientific discovery.  ...  Database (PSD), the major annotated protein sequence database in the public domain, containing about 250 000 proteins.  ...  The PIR is supported by grant P41 LM05978 from the National Library of Medicine, National Institutes of Health.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/30.1.35">doi:10.1093/nar/30.1.35</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/11752247">pmid:11752247</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC99125/">pmcid:PMC99125</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/prcjea53zrcj3bhdd2yvoydagi">fatcat:prcjea53zrcj3bhdd2yvoydagi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20100609230841/http://pir.georgetown.edu/pirwww/aboutpir/doc/nar2002.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/7b/52/7b5254c7f31fb652674c3327145690aaa0872dfc.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/30.1.35"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC99125" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Protein Information Resource

C. H. Wu
<span title="2003-01-01">2003</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Protein Information Resource (PIR) is an integrated public resource of protein informatics that supports genomic and proteomic research and scientific discovery.  ...  PIR also maintains NREF, a non-redundant reference database, and iProClass, an integrated database of protein family, function, and structure information.  ...  ACKNOWLEDGEMENT The PIR is supported by grant P41 LM05978 from the National Library of Medicine, National Institutes of Health.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkg040">doi:10.1093/nar/gkg040</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/12520019">pmid:12520019</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC165487/">pmcid:PMC165487</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/tkixiygtdvg7vjpo6xsbz34qte">fatcat:tkixiygtdvg7vjpo6xsbz34qte</a> </span>
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The Protein Information Resource (PIR)

W. C. Barker
<span title="2000-01-01">2000</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Protein Information Resource (PIR) produces the largest, most comprehensive, annotated protein sequence database in the public domain, the PIR-International Protein Sequence Database, in collaboration  ...  Several new web-based search engines combine searches of sequence similarity and database annotation to facilitate the analysis and functional identification of proteins.  ...  ACKNOWLEDGEMENTS PIR is a registered mark of NBRF. The work at NBRF is supported by grant number P41 LM05978 from the National Library of Medicine and by gifts from COMPAQ, Pfizer and Dupont.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/28.1.41">doi:10.1093/nar/28.1.41</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/10592177">pmid:10592177</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC102418/">pmcid:PMC102418</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/jmqdvezniratdgfskh5llytmua">fatcat:jmqdvezniratdgfskh5llytmua</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170808170848/http://www-nbrf.georgetown.edu/pirwww/aboutpir/doc/narpirpsd00.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/3f/99/3f9977949774b56fd6051e1732036bfcd134e2f5.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/28.1.41"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC102418" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Universal Protein Resource (UniProt): an expanding universe of protein information

C. H. Wu
<span title="2006-01-01">2006</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Universal Protein Resource (UniProt) provides a central resource on protein sequences and functional annotation with three database components, each addressing a key need in protein bioinformatics.  ...  The UniProt Knowledgebase (UniProtKB), comprising the manually annotated UniProtKB/Swiss-Prot section and the automatically annotated UniProtKB/ TrEMBL section, is the preeminent storehouse of protein  ...  Funding to pay the Open Access publication charges for this article was provided by EMBL.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkj161">doi:10.1093/nar/gkj161</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/16381842">pmid:16381842</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1347523/">pmcid:PMC1347523</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6xrpacost5entptndstyr7gnry">fatcat:6xrpacost5entptndstyr7gnry</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170715110006/https://oup.silverchair-cdn.com/oup/backfile/Content_public/Journal/nar/34/suppl_1/10.1093/nar/gkj161/2/gkj161.pdf?Expires=1500210005&amp;Signature=YytKGC6OkfOsuiUxqcOavAIrcLLTMmBd405tFBPtiN03Dhu-1hsZUoDOGRpAIZwpGeid0lFMztjshJgtO9DftkRKss8FIcl52BVpIJ1bFQ4hgxd92uph0JNaF~nwxSHyin6zbHjRwkZ-GX-GG0zkZdCVd7gasORD1aAMy6UAcjHSwXlsA~jHuamAPInk75EAPksyoWnW85j6xkd2MOGDRkgD53aks3CyfBQvP~6bFESi0ez7RblcziEB54zHfz7xlOk7DO-UdPt02XybT7mI9tQuJLsgPlZhUD9DLCzbJwHNnzPUYqNcUK3MSGqfJuqRf353kiv~~N~wuvN1pJi2Hw__&amp;Key-Pair-Id=APKAIUCZBIA4LVPAVW3Q" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/fb/86/fb86a997ddc702a2924ffbc473bc9ed27c57566a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkj161"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347523" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Protein Information Resource (PIR) and the PIR-International Protein Sequence Database

D. G. George, R. J. Dodson, J. S. Garavelli, D. H. Haft, L. T. Hunt, C. R. Marzec, B. C. Orcutt, K. E. Sidman, G. Y. Srinivasarao, L.-S. L. Yeh, L. M. Arminski, R. S. Ledley (+2 others)
<span title="1997-01-01">1997</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
From its origin, the PIR has aspired to support research in computational biology and genomics through the compilation of a comprehensive, quality controlled and well-organized protein sequence information  ...  cooperation as an essential element in the development of scientific databases.  ...  ACKNOWLEDGEMENTS This publication was supported in part by grant number P41 LM05798 from the National Library of Medicine.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/25.1.24">doi:10.1093/nar/25.1.24</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/9016497">pmid:9016497</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC146415/">pmcid:PMC146415</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/3dgqdeps6vglrlamwglkltwdvq">fatcat:3dgqdeps6vglrlamwglkltwdvq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190224212733/http://pdfs.semanticscholar.org/5ded/8201a9e25777e626a173f2d363fb0ff779fc.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/5d/ed/5ded8201a9e25777e626a173f2d363fb0ff779fc.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/25.1.24"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC146415" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

PIRSF: family classification system at the Protein Information Resource

C. H. Wu
<span title="2004-01-01">2004</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The PIRSF system provides a comprehensive resource for bioinformatics analysis and comparative studies of protein function and evolution.  ...  Here we demonstrate, with illustrative examples, how to use the web-based PIRSF system as a tool for functional and evolutionary studies of protein families.  ...  Acknowledgements The project is supported by grant U01-HG02712 from the National Institutes of Health and grant DBI-0138188 from the National Science Foundation.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkh097">doi:10.1093/nar/gkh097</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/14681371">pmid:14681371</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC308831/">pmcid:PMC308831</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/tr72ubcszncfdmbv4sc7lwpsym">fatcat:tr72ubcszncfdmbv4sc7lwpsym</a> </span>
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The Protein Model Portal—a comprehensive resource for protein structure and model information

Juergen Haas, Steven Roth, Konstantin Arnold, Florian Kiefer, Tobias Schmidt, Lorenza Bordoli, Torsten Schwede
<span title="2013-01-01">2013</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ejkvir3kzbdojf5kygupkidsca" style="color: black;">Database: The Journal of Biological Databases and Curation</a> </i> &nbsp;
The Protein Model Portal-a comprehensive resource for protein structure and model information.  ...  The Protein Model Portal (PMP) has been developed to foster effective use of 3D molecular models in biomedical research by providing convenient and comprehensive access to structural information for proteins  ...  We are indebted to Marco Biasini, Stefan Bienert, Andrew Waterhouse and Tobias Schmidt for their invaluable contributions concerning the structure annotation functionality within CAMEO.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bat031">doi:10.1093/database/bat031</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23624946">pmid:23624946</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3889916/">pmcid:PMC3889916</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/acu4ceij6raabopjz4l2pxnkvi">fatcat:acu4ceij6raabopjz4l2pxnkvi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200430171247/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC3889916&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/14/e4/14e4e50d6e003ae541cb45b39bd1b5fa294a6bcd.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bat031"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3889916" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

YPDTM, PombePDTM and WormPDTM: model organism volumes of the BioKnowledgeTM Library, an integrated resource for protein information

M. C. Costanzo
<span title="2001-01-01">2001</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
Each Protein Report on the web site summarizes and displays published information about a single protein, including its biochemical function, role in the cell and in the whole organism, localization, mutant  ...  The relevance of these comprehensively curated resources to analysis of proteins in other species is discussed, and is illustrated by a survey of model organism proteins that have similarity to human proteins  ...  We also thank the staffs of the Saccharomyces Genome Database (http://genome-www.stanford.edu/ Saccharomyces), the Munich Information Centre for Protein Sequences (http://www.mips.biochem.mpg.de), the  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/29.1.75">doi:10.1093/nar/29.1.75</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/11125054">pmid:11125054</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC29810/">pmcid:PMC29810</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/64s4nxfgifhnrdkcwk7u2uambi">fatcat:64s4nxfgifhnrdkcwk7u2uambi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20191110102033/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC29810&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ab/69/ab694bec650446e7e74a76a26fba660728001c82.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/29.1.75"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC29810" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Homeodomain Resource: a comprehensive collection of sequence, structure, interaction, genomic and functional information on the homeodomain protein family

R. T. Moreland, J. F. Ryan, C. Pan, A. D. Baxevanis
<span title="2009-04-28">2009</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ejkvir3kzbdojf5kygupkidsca" style="color: black;">Database: The Journal of Biological Databases and Curation</a> </i> &nbsp;
The Homeodomain Resource is a curated collection of sequence, structure, interaction, genomic and functional information on the homeodomain family.  ...  and the improvement of data accessibility through better search tools and more complete data integration.  ...  This research was supported by the Intramural Research Program of the National Human Genome Research Institute, National Institutes of Health. Conflict of interest. None declared.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bap004">doi:10.1093/database/bap004</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20157477">pmid:20157477</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2790301/">pmcid:PMC2790301</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/bw6tfpww2nftlnhxaagpu54qgm">fatcat:bw6tfpww2nftlnhxaagpu54qgm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180727133625/https://watermark.silverchair.com/bap004.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAb4wggG6BgkqhkiG9w0BBwagggGrMIIBpwIBADCCAaAGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMTdj1CoV45nKOJv_SAgEQgIIBcSN-gTPadgkheEeiSDOpOYR4YaIKh8JZjDgKl2O5G9RdnIPbXtAWXOZzoRX63Hb3QANbxMI6pbODiqDEOJRu2-ePCtqyFKlzVFM-sH2pFUbO6TYEwOt5OAfcn97kDx-kpbWc-WvoHTiHwHd8WrnxVHaRhQ2-IT7ij-xYm_PUJRkgZ00dwZGbHIiJ3-YfBYiqG0WNP5zsAgm2OKKCVzQWwBvoMgrKLEgjNDhMp3lhkZXhiSqmVtxkld-fIiX7utzWGjrR_u2CBRAiLaVn4-rEDwVOL7JpS6l0O7x1sPbtUzTbwG6f4LxKPftncrv_ecA0qUMx1qVCloixFO6Iy_BGwTWJNRUagPOy_z1kFidyRyup0atMZDiAoIQfzYSpb8iSU9VCQ_NpdsRqpJHvg1DXAe_AN2u4QbS0evU8kuZSG0AJpuhECSSUMWy2glnzcxsn8fmf0mpubiNoypD4frlo4XI_6wznYL_JNeTL9rLkM2iRrQ" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/84/bd/84bd381d498f78e63cb6935ebd6ce865419d24a0.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bap004"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2790301" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Yeast Proteome Database (YPD) and Caenorhabditis elegans Proteome Database (WormPD): comprehensive resources for the organization and comparison of model organism protein information

M. C. Costanzo
<span title="2000-01-01">2000</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
Properties and functions of the protein are presented in tabular form in the upper part of the Report, and free-text annotations organized by topic are presented in the lower part.  ...  The Yeast Proteome Database (YPD™) has been for several years a resource for organized and accessible information about the proteins of Saccharomyces cerevisiae.  ...  ACKNOWLEDGEMENTS We thank the staff of the Saccharomyces Genome Database (http://genome-www.stanford.edu/Saccharomyces ), the Munich Information Centre for Protein Sequences (http://www. mips. biochem.mpg.de  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/28.1.73">doi:10.1093/nar/28.1.73</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/10592185">pmid:10592185</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC102421/">pmcid:PMC102421</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/peejgnzoezfkzmlwrw7zdkjgmm">fatcat:peejgnzoezfkzmlwrw7zdkjgmm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20050518190138/http://nar.oupjournals.org:80/cgi/reprint/28/1/73.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/8d/c7/8dc73872aff5eefb759ad5c71a68b3e13cb4cf23.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/28.1.73"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC102421" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Curated protein information in the Saccharomyces genome database

Sage T. Hellerstedt, Robert S. Nash, Shuai Weng, Kelley M. Paskov, Edith D. Wong, Kalpana Karra, Stacia R. Engel, J. Michael Cherry
<span title="2017-01-01">2017</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ejkvir3kzbdojf5kygupkidsca" style="color: black;">Database: The Journal of Biological Databases and Curation</a> </i> &nbsp;
Because of broad interest in post-translational modifications (PTM) and their importance to protein function and regulation, we have recently started incorporating expertly curated PTM information on individual  ...  Here we also present the inclusion of new abundance and protein half-life data obtained from high-throughput proteome studies.  ...  The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Human Genome Research Institute or the National Institutes of Health.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bax011">doi:10.1093/database/bax011</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/28365727">pmid:28365727</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5467551/">pmcid:PMC5467551</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/newudxlhtvd5ljgb6lgppz4pp4">fatcat:newudxlhtvd5ljgb6lgppz4pp4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200210093159/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC5467551&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d6/4e/d64e7da27ce601f7fe354fb8dc8bb59b57b93a86.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bax011"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5467551" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Protein Information Resource: a community resource for expert annotation of protein data

W. C. Barker
<span title="2001-01-01">2001</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Protein Information Resource (PIR) provides protein databases and analysis tools to support research on molecular evolution, functional genomics, and computational biology.  ...  , well-annotated, and non-redundant protein sequence database in the public domain.  ...  The Protein Information Resource (PIR) provides protein databases and analysis tools to support research on molecular evolution, functional genomics, and computational biology.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/29.1.29">doi:10.1093/nar/29.1.29</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/11125041">pmid:11125041</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC29802/">pmcid:PMC29802</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ipmquez4fbdlfghsacscn4h7zi">fatcat:ipmquez4fbdlfghsacscn4h7zi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170808170852/http://www-nbrf.georgetown.edu/pirwww/aboutpir/doc/protsociety_pir01.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c6/b1/c6b17c97563f7605410243e9a0b0f7d80a8fc27b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/29.1.29"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC29802" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community

Martha B. Arnaud, Marcus C. Chibucos, Maria C. Costanzo, Jonathan Crabtree, Diane O. Inglis, Adil Lotia, Joshua Orvis, Prachi Shah, Marek S. Skrzypek, Gail Binkley, Stuart R. Miyasato, Jennifer R. Wortman (+1 others)
<span title="2009-09-22">2009</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
The Aspergillus Genome Database (AspGD) is an online genomics resource for researchers studying the genetics and molecular biology of the Aspergilli.  ...  refine and improve structural gene annotations across multiple Aspergillus species, and web-based research tools for accessing and exploring the data.  ...  ACKNOWLEDGEMENTS We would like to thank CADRE for data exchange and support, SGD for providing their code base and the Aspergillus research community for giving us their support and the opportunity to  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkp751">doi:10.1093/nar/gkp751</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19773420">pmid:19773420</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2808984/">pmcid:PMC2808984</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/nfra65frajdqnmywomhkshr7kq">fatcat:nfra65frajdqnmywomhkshr7kq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190224190633/http://pdfs.semanticscholar.org/6728/308c25dd954a8e3a3e00ba2fdef27ce1d02a.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/67/28/6728308c25dd954a8e3a3e00ba2fdef27ce1d02a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkp751"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808984" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The value of protein structure classification information-Surveying the scientific literature

Naomi K. Fox, Steven E. Brenner, John-Marc Chandonia
<span title="2015-09-19">2015</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/fkowqlvuffe5lnyfwblj3fcp7i" style="color: black;">Proteins: Structure, Function, and Bioinformatics</a> </i> &nbsp;
The Structural Classification of Proteins (SCOP) and Class, Architecture, Topology, Homology (CATH) databases have been valuable resources for protein structure classification for over 20 years.  ...  C) augment non-SCOP datasets with SCOP classification (21% of articles), and D) examine the classification of one protein/a small set of proteins (22% of articles).  ...  categorization of all proteins of known structure. 1-3 These resources provide broad surveys of known protein folds and detailed information about the structurally characterized relatives of any classified  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/prot.24915">doi:10.1002/prot.24915</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26313554">pmid:26313554</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4609302/">pmcid:PMC4609302</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/jriytz7cnfes7dsmhbwpesjkam">fatcat:jriytz7cnfes7dsmhbwpesjkam</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190502080255/https://cloudfront.escholarship.org/dist/prd/content/qt8d1073z0/qt8d1073z0.pdf?t=ori9u9" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/1b/3b/1b3b1e0c1a2da8292738fc9cfd931ae980e9a9cd.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/prot.24915"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> wiley.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4609302" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Shared resources, shared costs—leveraging biocuration resources

Sandra Orchard, Henning Hermjakob
<span title="2015-01-01">2015</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ejkvir3kzbdojf5kygupkidsca" style="color: black;">Database: The Journal of Biological Databases and Curation</a> </i> &nbsp;
The manual curation of the information in biomedical resources is an expensive task.  ...  Approaches taken by two of these, the Gene Ontology annotation effort and the IntAct molecular interaction database, are reviewed in more detail.  ...  Conflict of interest. None declared.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bav009">doi:10.1093/database/bav009</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25776020">pmid:25776020</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4360620/">pmcid:PMC4360620</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/hqo72b6gbnerzgodftpd4ofvmm">fatcat:hqo72b6gbnerzgodftpd4ofvmm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200208064505/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC4360620&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/e0/7e/e07e799ed57abd1c52ac37a83b1f375f7f6182d6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bav009"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4360620" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>
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