{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,4,22]],"date-time":"2023-04-22T00:29:24Z","timestamp":1682123364898},"reference-count":4,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2017,1,17]],"date-time":"2017-01-17T00:00:00Z","timestamp":1484611200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"ERC Advanced Grant CYRE No","award":["340941"],"award-info":[{"award-number":["340941"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,5,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Protein-protein interaction (PPI) studies have dramatically expanded our knowledge about cellular behaviour and development in different conditions. A multitude of high-throughput PPI techniques have been developed to achieve proteome-scale coverage for PPI studies, including the microarray based Mammalian Protein-Protein Interaction Trap (MAPPIT) system. Because such high-throughput techniques typically report thousands of interactions, managing and analysing the large amounts of acquired data is a challenge. We have therefore built the MAPPIT cell microArray Protein Protein Interaction-Data management &amp; Analysis Tool (MAPPI-DAT) as an automated data management and analysis tool for MAPPIT cell microarray experiments. MAPPI-DAT stores the experimental data and metadata in a systematic and structured way, automates data analysis and interpretation, and enables the meta-analysis of MAPPIT cell microarray data across all stored experiments.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and Implementation<\/jats:title>\n                  <jats:p>MAPPI-DAT is developed in Python, using R for data analysis and MySQL as data management system. MAPPI-DAT is cross-platform and can be ran on Microsoft Windows, Linux and OS X\/macOS. The source code and a Microsoft Windows executable are freely available under the permissive Apache2 open source license at https:\/\/github.com\/compomics\/MAPPI-DAT.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btx014","type":"journal-article","created":{"date-parts":[[2017,1,20]],"date-time":"2017-01-20T01:23:50Z","timestamp":1484875430000},"page":"1424-1425","source":"Crossref","is-referenced-by-count":1,"title":["MAPPI-DAT: data management and analysis for protein\u2013protein interaction data from the high-throughput MAPPIT cell microarray platform"],"prefix":"10.1093","volume":"33","author":[{"given":"Surya","family":"Gupta","sequence":"first","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"},{"name":"Bioinformatics Institute Ghent, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Veronic","family":"De Puysseleyr","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jos\u00e9","family":"Van der Heyden","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Davy","family":"Maddelein","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"},{"name":"Bioinformatics Institute Ghent, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Irma","family":"Lemmens","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sam","family":"Lievens","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sven","family":"Degroeve","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"},{"name":"Bioinformatics Institute Ghent, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jan","family":"Tavernier","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lennart","family":"Martens","sequence":"additional","affiliation":[{"name":"Medical Biotechnology Center, VIB, Ghent, Belgium"},{"name":"Department of Biochemistry, Ghent University, Ghent, Belgium"},{"name":"Bioinformatics Institute Ghent, Ghent University, Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2017,1,17]]},"reference":[{"key":"2023020205103488700_btx014-B1","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1016\/j.copbio.2010.09.007","article-title":"Recent advances in charting protein\u2013protein interaction: mass spectrometry-based approaches","volume":"22","author":"Gavin","year":"2011","journal-title":"Curr. Opin. Biotechnol"},{"key":"2023020205103488700_btx014-B2","doi-asserted-by":"crossref","first-page":"321","DOI":"10.1016\/j.cytogfr.2011.11.001","article-title":"MAPPIT: A protein interaction toolbox built on insights in cytokine receptor signaling","volume":"22","author":"Lievens","year":"2011","journal-title":"Cytokine Growth Factor Rev"},{"key":"2023020205103488700_btx014-B3","doi-asserted-by":"crossref","DOI":"10.1074\/mcp.M116.061994","article-title":"Proteome-scale binary interactomics in human cells","author":"Lievens","year":"2016","journal-title":"Mol. Cell. Proteomics"},{"key":"2023020205103488700_btx014-B4","doi-asserted-by":"crossref","first-page":"625","DOI":"10.1089\/106652701753307520","article-title":"Assessing Gene Signi cance from cDNA Microarray Expression Data via Mixed Models","volume":"8","author":"Wolfinger","year":"2001","journal-title":"J. Comput. Biol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/33\/9\/1424\/49038694\/bioinformatics_33_9_1424.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/33\/9\/1424\/49038694\/bioinformatics_33_9_1424.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T05:15:41Z","timestamp":1675314941000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/33\/9\/1424\/2910772"}},"subtitle":[],"editor":[{"given":"Alfonso","family":"Valencia","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2017,1,17]]},"references-count":4,"journal-issue":{"issue":"9","published-print":{"date-parts":[[2017,5,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btx014","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2017,5,1]]},"published":{"date-parts":[[2017,1,17]]}}}