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EuroPhenome: a repository for high-throughput mouse phenotyping data

Hugh Morgan, Tim Beck, Andrew Blake, Hilary Gates, Niels Adams, Guillaume Debouzy, Sophie Leblanc, Christoph Lengger, Holger Maier, David Melvin, Hamid Meziane, Dave Richardson (+7 others)
<span title="2009-11-23">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;
ACKNOWLEDGEMENTS The authors thank the members of the EUMODIC Bioinformatics workpackage, the EUMODIC consortium and the members of the mouse clinics who worked very  ...  a high-throughput scale with the establishment of projects devoted to the manufacture of mouse gene knockout lines.  ...  The complexity and size of data generated from high-throughput phenotyping projects is a new challenge for bioinformatics and hence new methods and approaches to displaying this data are required.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkp1007">doi:10.1093/nar/gkp1007</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19933761">pmid:19933761</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2808931/">pmcid:PMC2808931</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/rharp3a65nbnhg4vw3cxez6tje">fatcat:rharp3a65nbnhg4vw3cxez6tje</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190226051317/http://pdfs.semanticscholar.org/6936/a6a4d577a3bcb80180e12beb02a7221a2909.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/69/36/6936a6a4d577a3bcb80180e12beb02a7221a2909.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkp1007"> <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/PMC2808931" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

EuroPhenome and EMPReSS: online mouse phenotyping resource

A.-M. Mallon, A. Blake, J. M. Hancock
<span title="2007-12-23">2007</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;
ACKNOWLEDGEMENTS We thank Simon Greenaway for initial work on the EuroPhenome database schema and Aadya Shukla for coordinating the collection of raw data and for a preliminary draft of the database.  ...  We also thank the members of the EUMORPHIA consortium for their work in drafting the SOPs and generating the baseline data.  ...  EUMODIC has developed a phenotyping screen called EMPReSSslim, which is structured for comprehensive, primary, high-throughput phenotyping of large numbers of mice.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkm728">doi:10.1093/nar/gkm728</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17905814">pmid:17905814</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2238991/">pmcid:PMC2238991</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/gwbqdabjkjd3xe333viybyxs5y">fatcat:gwbqdabjkjd3xe333viybyxs5y</a> </span>
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Accessing data from the International Mouse Phenotyping Consortium: state of the art and future plans

Ann-Marie Mallon, Vivek Iyer, David Melvin, Hugh Morgan, Helen Parkinson, Steve D. M. Brown, Paul Flicek, William C. Skarnes
<span title="2012-09-19">2012</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2wcheulsyvd7bott7zn35dhoti" style="color: black;">Mammalian Genome</a> </i> &nbsp;
Here we review the existing EuroPhenome and WTSI phenotype informatics systems and the IKMC portal, and present plans for extending these systems and lessons learned to the development of a robust IMPC  ...  Comprehensive informatics solutions are vital to ensuring that this vast array of data is captured in a standardised manner and made accessible to the scientific community for interrogation and analysis  ...  Mouse phenotyping data Phenotyping procedures and pipelines The standardisation of phenotyping procedures and pipelines is vital to ensure that the data generated from laboratories performing high-throughput  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-012-9428-9">doi:10.1007/s00335-012-9428-9</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22991088">pmid:22991088</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4106044/">pmcid:PMC4106044</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/gk4s2xebgfe5lggaovhzznfxpy">fatcat:gk4s2xebgfe5lggaovhzznfxpy</a> </span>
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Phenobabelomics--mouse phenotype data resources

J. M. Hancock, A.-M. Mallon
<span title="2008-01-22">2008</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/db7gv4nqurbrhk7jywtr3wbcme" style="color: black;">Briefings in Functional Genomics &amp; Proteomics</a> </i> &nbsp;
A wide variety of online sites exist that provide different types of phenotypic information on the laboratory mouse.  ...  An essential aspect to understanding the functional significance of individual genes in the mouse genome is an understanding of the phenotypic consequences of gene mutations.  ...  Acknowledgements The authors thank the Medical Research Council for support.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bfgp/elm033">doi:10.1093/bfgp/elm033</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/18192320">pmid:18192320</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/o37od2s24vbc3i73tnpssupaoa">fatcat:o37od2s24vbc3i73tnpssupaoa</a> </span>
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Mouse, man, and meaning: bridging the semantics of mouse phenotype and human disease

John M. Hancock, Ann-Marie Mallon, Tim Beck, Georgios V. Gkoutos, Chris Mungall, Paul N. Schofield
<span title="">2009</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2wcheulsyvd7bott7zn35dhoti" style="color: black;">Mammalian Genome</a> </i> &nbsp;
It also requires the development of a sophisticated informatics infrastructure for the description and interchange of phenotype data.  ...  Now that the laboratory mouse genome is sequenced and the annotation of its gene content is improving, the next major challenge is the annotation of the phenotypic associations of mouse genes.  ...  However, it is not suitable for the detailed description of data generated by high-throughput phenotyping projects for a number of reasons.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-009-9208-3">doi:10.1007/s00335-009-9208-3</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19649761">pmid:19649761</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2759022/">pmcid:PMC2759022</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/dn7zwg4ygfckvdskzsjk6l2vfy">fatcat:dn7zwg4ygfckvdskzsjk6l2vfy</a> </span>
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Expanding the mammalian phenotype ontology to support automated exchange of high throughput mouse phenotyping data generated by large-scale mouse knockout screens

Cynthia L Smith, Janan T Eppig
<span title="2015-03-25">2015</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iasjcyzzyncgnohh3aitx65bhq" style="color: black;">Journal of Biomedical Semantics</a> </i> &nbsp;
A vast array of data is about to emerge from the large scale high-throughput mouse knockout phenotyping projects worldwide.  ...  Results: The IMPC (International Mouse Phenotyping Consortium) is using the Mammalian Phenotype (MP) ontology in the automated annotation of phenodeviant data from high throughput phenotyping screens.  ...  Henrik Westerberg and the data wranglers of the IMPC consortium have made many requests for terms and have suggested revisions.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s13326-015-0009-1">doi:10.1186/s13326-015-0009-1</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25825651">pmid:25825651</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4378007/">pmcid:PMC4378007</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/yxfrcuzhxrf2hae2w4mhd7tamq">fatcat:yxfrcuzhxrf2hae2w4mhd7tamq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170813041100/https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-015-0009-1?site=jbiomedsem.biomedcentral.com" 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/ed/49/ed49876f476f9b682535d58dc86f41fd792d8cf5.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s13326-015-0009-1"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4378007" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Integration of mouse phenome data resources

<span title="2007-04-10">2007</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2wcheulsyvd7bott7zn35dhoti" style="color: black;">Mammalian Genome</a> </i> &nbsp;
Integration of mouse phenome data resources (Mammalian Genome (2007) 18, 3, (157-163).  ...  Acknowledgements We thank EUMORPHIA (funded by the European Commission under contract number QLG2-CT-2002-00930) and PRIME (funded by the European Commission under contract number LSHG-CT-2005-005283) for  ...  Europhenome, through to descriptions of high throughput phenotyping studies such as EUMODIC and summary descriptions of individual mutant lines held at a number of sites.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-007-9004-x">doi:10.1007/s00335-007-9004-x</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17436037">pmid:17436037</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4230762/">pmcid:PMC4230762</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/g24y5pmyivesvn4jak7ralglre">fatcat:g24y5pmyivesvn4jak7ralglre</a> </span>
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The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data

Gautier Koscielny, Gagarine Yaikhom, Vivek Iyer, Terrence F. Meehan, Hugh Morgan, Julian Atienza-Herrero, Andrew Blake, Chao-Kung Chen, Richard Easty, Armida Di Fenza, Tanja Fiegel, Mark Grifiths (+21 others)
<span title="2013-11-04">2013</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;
They thank Mary Todd Bergman and Spencer Phillips of the EBI for their assistance with figures for this article and Hayley Protheroe and the WTSI Team 109 for providing mouse images.  ...  They also thank the IMPC Steering Committee and PSC for feedback on the interfaces.  ...  high-throughput phenotyping assays (6, 7) .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkt977">doi:10.1093/nar/gkt977</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24194600">pmid:24194600</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3964955/">pmcid:PMC3964955</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/67adsckyo5c3jo65sc7ecercrm">fatcat:67adsckyo5c3jo65sc7ecercrm</a> </span>
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BioMart as an integration solution for the International Knockout Mouse Consortium

D. J. Oakley, V. Iyer, W. C. Skarnes, D. Smedley
<span title="2011-09-18">2011</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;
Acknowledgements We are most grateful to all the members of the IKMC programs for making the data available for creation of the BioMart datasets. In particular, we thank Jeremy C.  ...  Mason, Kevin Stone, James A. Kadin, Janan T. Eppig  ...  Eurexpress In situ embryonic expression data from the BioMart at biomart.eurex- press.org (12) Europhenome Europhenome High-throughput phenotype data of mice produced from EUCOMM ES cell resources  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bar028">doi:10.1093/database/bar028</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21930503">pmid:21930503</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3263594/">pmcid:PMC3263594</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/aysiqciu6vetrht6hqqxjlf5pe">fatcat:aysiqciu6vetrht6hqqxjlf5pe</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190304054830/http://pdfs.semanticscholar.org/c1b6/91ec7b8e74acfd32a5ae92ba397533f7f37b.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/c1/b6/c1b691ec7b8e74acfd32a5ae92ba397533f7f37b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/database/bar028"> <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/PMC3263594" 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 Mammalian Phenotype Ontology as a unifying standard for experimental and high-throughput phenotyping data

Cynthia L. Smith, Janan T. Eppig
<span title="2012-09-09">2012</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2wcheulsyvd7bott7zn35dhoti" style="color: black;">Mammalian Genome</a> </i> &nbsp;
These data, along with data curated to the MP by many mouse mutagenesis programs and mouse repositories, provide a platform for comparative analyses and correlative discoveries.  ...  The Mammalian Phenotype Ontology (MP) is a structured vocabulary for describing mammalian phenotypes and serves as a critical tool for efficient annotation and comprehensive retrieval of phenotype data  ...  Babiuk for helpful comments on the manuscript. This work was funded by the National Institutes of Health, National Human Genome Research Institute (NHGRI) Grant HG000330.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-012-9421-3">doi:10.1007/s00335-012-9421-3</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22961259">pmid:22961259</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3463787/">pmcid:PMC3463787</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ygcz5rtafnbo7a7exo764r5vsu">fatcat:ygcz5rtafnbo7a7exo764r5vsu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170717080017/https://link.springer.com/content/pdf/10.1007%2Fs00335-012-9421-3.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/98/ed/98ed4e1faae5a211e5f5e9e53afd165ad1e5daff.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-012-9421-3"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3463787" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Where's the Mouse Info?

J. P. Sundberg, J. M. Ward, P. Schofield
<span title="2009-07-15">2009</span> <i title="SAGE Publications"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/jq77ii55xngf7ifzqurzqv7ary" style="color: black;">Veterinary pathology</a> </i> &nbsp;
high throughput data gathering, have made the mouse the preeminent model for the study of human biology and disease. 34 With the completion of the mouse genome sequence, it is now possible to rapidly  ...  The increased sophistication and miniaturization of physiological monitoring and diagnostic instrumentation mean that the depth of phenotype data that can be collected is unprecedented.  ...  Record keeping is always an issue with diagnostic workups and even more so for large scale, high throughput, phenotyping programs.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1354/vp.09-vp-0042-s-com">doi:10.1354/vp.09-vp-0042-s-com</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19605899">pmid:19605899</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3804057/">pmcid:PMC3804057</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/eeorzzoffndktigjbylo3qqp7e">fatcat:eeorzzoffndktigjbylo3qqp7e</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200502074205/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC3804057&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/6d/f1/6df1954cbff193b1ab54a33a5aae1f9e1a4bfeb3.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1354/vp.09-vp-0042-s-com"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3804057" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Analysis of mammalian gene function through broad-based phenotypic screens across a consortium of mouse clinics

Martin Hrabě de Angelis, George Nicholson, Mohammed Selloum, Jacqueline K White, Hugh Morgan, Ramiro Ramirez-Solis, Tania Sorg, Sara Wells, Helmut Fuchs, Martin Fray, David J Adams, Niels C Adams (+157 others)
<span title="2015-07-27">2015</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ndd3azjmwfh45iqb6bvdfttaf4" style="color: black;">Nature Genetics</a> </i> &nbsp;
We developed novel statistical methods for pipeline design and data analysis aimed at detecting reproducible phenotypes with high power.  ...  The mouse ES cell knockout resource provides a basis for characterisation of relationships between gene and phenotype.  ...  Access The EuroPhenome database is an open access public database.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/ng.3360">doi:10.1038/ng.3360</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26214591">pmid:26214591</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4564951/">pmcid:PMC4564951</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/mbfwpaop3fh45p5fn2t4zwme6a">fatcat:mbfwpaop3fh45p5fn2t4zwme6a</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200305101759/https://univoak.eu/islandora/object/islandora%3A55587/datastream/PDF/view" 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/d0/56/d05625bac093c5eeea18df879f5efafcadb54ab6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/ng.3360"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> nature.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4564951" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Semantically enabling a genome-wide association study database

Tim Beck, Robert C Free, Gudmundur A Thorisson, Anthony J Brookes
<span title="">2012</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iasjcyzzyncgnohh3aitx65bhq" style="color: black;">Journal of Biomedical Semantics</a> </i> &nbsp;
Conclusions: We present a methodology for applying phenotype annotations to a comprehensive genome-wide association dataset and for ensuring compatibility with the Semantic Web.  ...  Results: A pragmatic consideration when applying phenotype ontologies to GWAS data is the ability to retrieve all data, at the most granular level possible, from querying a single ontology graph.  ...  Acknowledgements We thank the curation team of Robert Hastings, Sirisha Gollapudi and Raheleh Rahbari for providing the high-quality phenotype annotations within GWAS Central.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/2041-1480-3-9">doi:10.1186/2041-1480-3-9</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23244533">pmid:23244533</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3579732/">pmcid:PMC3579732</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/nepqhbjc5rblpd3ckwriiaw7ge">fatcat:nepqhbjc5rblpd3ckwriiaw7ge</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20141002031309/http://www.jbiomedsem.com/content/pdf/2041-1480-3-9.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/8f/8e/8f8e871f26b997a3ffd5a687cb26d498b2691493.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/2041-1480-3-9"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3579732" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Mouse genomics programs and resources

Maja Bucan, Janan T. Eppig, Steve Brown
<span title="2012-09-12">2012</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2wcheulsyvd7bott7zn35dhoti" style="color: black;">Mammalian Genome</a> </i> &nbsp;
a standard for mouse phenotype data.  ...  with a goal of assessing 600 mutant lines http://www.eumodic.org/ Europhenome Europhenome Collaborative Mouse Phenotype Resource Access to raw and annotated mouse phenotyping data generated  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-012-9429-8">doi:10.1007/s00335-012-9429-8</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22968825">pmid:22968825</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/it76u5pazjfl7iyanz6ohggk44">fatcat:it76u5pazjfl7iyanz6ohggk44</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170910160025/https://link.springer.com/content/pdf/10.1007%2Fs00335-012-9429-8.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/10/71/1071046b6a51ea961fe13faa2a83898dfbca294b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00335-012-9429-8"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse

Judith A. Blake, Carol J. Bult, Janan T. Eppig, James A. Kadin, Joel E. Richardson
<span title="2013-11-26">2013</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;
vertebrate genomes and new loads of phenotype data from high-throughput phenotyping projects.  ...  The Mouse Genome Database (MGD) (http://www. informatics.jax.org) is the community model organism database resource for the laboratory mouse, a premier animal model for the study of genetic and genomic  ...  High-throughput Phenotype Data: This partial image of the phenotype detail page for the targeted allele Sytl1tm1a(KOMP)Wtsi illustrates the ability to compare high-throughput data results.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkt1225">doi:10.1093/nar/gkt1225</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24285300">pmid:24285300</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3964950/">pmcid:PMC3964950</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/iszlulio2zaw3kc7qmd3t22jmy">fatcat:iszlulio2zaw3kc7qmd3t22jmy</a> </span>
<a target="_blank" rel="noopener" href="https://archive.org/download/pubmed-PMC3964950/PMC3964950-gkt1225.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> File Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/31/d2/31d2827d8ae7e987ac817fb6dc9332a40b87d78f.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gkt1225"> <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/PMC3964950" 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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