{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,31]],"date-time":"2026-03-31T05:20:10Z","timestamp":1774934410999,"version":"3.50.1"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2020,12,26]],"date-time":"2020-12-26T00:00:00Z","timestamp":1608940800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"ELIXIR-GR","award":["MIS 5002780"],"award-info":[{"award-number":["MIS 5002780"]}]},{"name":"EATRIS-GR","award":["MIS 5028091"],"award-info":[{"award-number":["MIS 5028091"]}]},{"name":"INSPIRED","award":["MIS 5002550"],"award-info":[{"award-number":["MIS 5002550"]}]},{"name":"INSPIRED","award":["MIS 5002469"],"award-info":[{"award-number":["MIS 5002469"]}]},{"name":"Strategic Development on the Research and Technological Sector\u2019","award":["NSRF 2014-2020"],"award-info":[{"award-number":["NSRF 2014-2020"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,4,9]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>The PICKLE 3.0 upgrade refers to the enrichment of this human protein\u2013protein interaction (PPI) meta-database with the mouse protein interactome. Experimental PPI data between mouse genetic entities are rather limited; however, they are substantially complemented by PPIs between mouse and human genetic entities. The relational scheme of PICKLE 3.0 has been amended to exploit the Mouse Genome Informatics mouse\u2013human ortholog gene pair collection, enabling (i) the extension through orthology of the mouse interactome with potentially valid PPIs between mouse entities based on the experimental PPIs between mouse and human entities and (ii) the comparison between mouse and human PPI networks. Interestingly, 43.5% of the experimental mouse PPIs lacks a corresponding by orthology PPI in human, an inconsistency in need of further investigation. Overall, as primary mouse PPI datasets show a considerably limited overlap, PICKLE 3.0 provides a unique comprehensive representation of the mouse protein interactome.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>PICKLE can be queried and downloaded at http:\/\/www.pickle.gr.<\/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\/btaa1070","type":"journal-article","created":{"date-parts":[[2020,12,19]],"date-time":"2020-12-19T08:05:19Z","timestamp":1608365119000},"page":"145-146","source":"Crossref","is-referenced-by-count":33,"title":["PICKLE 3.0: enriching the human meta-database with the mouse protein interactome extended <i>via<\/i> mouse\u2013human orthology"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7817-9552","authenticated-orcid":false,"given":"Georgios N","family":"Dimitrakopoulos","sequence":"first","affiliation":[{"name":"Laboratory of General Biology, School of Medicine, University of Patras , Patras, Greece"},{"name":"Metabolic Engineering and Systems Biology Laboratory, Institute of Chemical Engineering Sciences, Foundation for Research and Technology Hellas (FORTH\/ICE-HT) , Patras, Greece"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2047-3185","authenticated-orcid":false,"given":"Maria I","family":"Klapa","sequence":"additional","affiliation":[{"name":"Metabolic Engineering and Systems Biology Laboratory, Institute of Chemical Engineering Sciences, Foundation for Research and Technology Hellas (FORTH\/ICE-HT) , Patras, Greece"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2556-537X","authenticated-orcid":false,"given":"Nicholas K","family":"Moschonas","sequence":"additional","affiliation":[{"name":"Laboratory of General Biology, School of Medicine, University of Patras , Patras, Greece"},{"name":"Metabolic Engineering and Systems Biology Laboratory, Institute of Chemical Engineering Sciences, Foundation for Research and Technology Hellas (FORTH\/ICE-HT) , Patras, Greece"}]}],"member":"286","published-online":{"date-parts":[[2020,12,26]]},"reference":[{"key":"2023051510470203100_btaa1070-B1","doi-asserted-by":"crossref","first-page":"D801","DOI":"10.1093\/nar\/gky1056","article-title":"Mouse genome database (MGD) 2019","volume":"47","author":"Bult","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2023051510470203100_btaa1070-B2","doi-asserted-by":"crossref","first-page":"e0186039","DOI":"10.1371\/journal.pone.0186039","article-title":"PICKLE 2.0: a human protein-protein interaction meta-database employing data integration via genetic information ontology","volume":"12","author":"Gioutlakis","year":"2017","journal-title":"PLoS One"},{"key":"2023051510470203100_btaa1070-B3","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1186\/1752-0509-7-96","article-title":"Reconstruction of the experimentally supported human protein interactome: what can we learn?","volume":"7","author":"Klapa","year":"2013","journal-title":"BMC Syst. 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