{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,17]],"date-time":"2026-07-17T15:10:50Z","timestamp":1784301050278,"version":"3.55.0"},"reference-count":21,"publisher":"Oxford University Press (OUP)","issue":"11","license":[{"start":{"date-parts":[[2020,3,6]],"date-time":"2020-03-06T00:00:00Z","timestamp":1583452800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100002081","name":"Irish Research Council","doi-asserted-by":"publisher","award":["GOIPG\/2014\/603"],"award-info":[{"award-number":["GOIPG\/2014\/603"]}],"id":[{"id":"10.13039\/501100002081","id-type":"DOI","asserted-by":"publisher"}]},{"name":"UCD School of Computer Science Bursary"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,6,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>The subcellular location of a protein can provide useful information for protein function prediction and drug design. Experimentally determining the subcellular location of a protein is an expensive and time-consuming task. Therefore, various computer-based tools have been developed, mostly using machine learning algorithms, to predict the subcellular location of proteins.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>Here, we present a neural network-based algorithm for protein subcellular location prediction. We introduce SCLpred-EMS a subcellular localization predictor powered by an ensemble of Deep N-to-1 Convolutional Neural Networks. SCLpred-EMS predicts the subcellular location of a protein into two classes, the endomembrane system and secretory pathway versus all others, with a Matthews correlation coefficient of 0.75\u20130.86 outperforming the other state-of-the-art web servers we tested.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>SCLpred-EMS is freely available for academic users at http:\/\/distilldeep.ucd.ie\/SCLpred2\/.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Contact<\/jats:title>\n                  <jats:p>catherine.mooney@ucd.ie<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa156","type":"journal-article","created":{"date-parts":[[2020,3,2]],"date-time":"2020-03-02T20:19:43Z","timestamp":1583180383000},"page":"3343-3349","source":"Crossref","is-referenced-by-count":35,"title":["SCLpred-EMS: subcellular localization prediction of endomembrane system and secretory pathway proteins by Deep N-to-1 Convolutional Neural Networks"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9043-0802","authenticated-orcid":false,"given":"Manaz","family":"Kaleel","sequence":"first","affiliation":[{"name":"School of Computer Science"},{"name":"UCD Institute for Discovery , University College Dublin, Dublin, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yandan","family":"Zheng","sequence":"additional","affiliation":[{"name":"Beijing-Dublin International College , Beijing University of Technology, Chaoyang, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jialiang","family":"Chen","sequence":"additional","affiliation":[{"name":"Beijing-Dublin International College , Beijing University of Technology, Chaoyang, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xuanming","family":"Feng","sequence":"additional","affiliation":[{"name":"Beijing-Dublin International College , Beijing University of Technology, Chaoyang, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeremy C","family":"Simpson","sequence":"additional","affiliation":[{"name":"Conway Institute of Biomolecular and Biomedical Research"},{"name":"School of Biology and Environmental Science , University College Dublin, Dublin, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gianluca","family":"Pollastri","sequence":"additional","affiliation":[{"name":"School of Computer Science"},{"name":"UCD Institute for Discovery , University College Dublin, Dublin, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7696-1364","authenticated-orcid":false,"given":"Catherine","family":"Mooney","sequence":"additional","affiliation":[{"name":"School of Computer Science"},{"name":"Beijing-Dublin International College , Beijing University of Technology, Chaoyang, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2020,3,6]]},"reference":[{"key":"2023062312015606300_btaa156-B1","doi-asserted-by":"crossref","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","article-title":"Gapped BLAST and PSI-BLAST: a new generation of protein database search programs","volume":"25","author":"Altschul","year":"1997","journal-title":"Nucleic Acids Res"},{"key":"2023062312015606300_btaa156-B2","doi-asserted-by":"crossref","first-page":"3387","DOI":"10.1093\/bioinformatics\/btx431","article-title":"DeepLoc: prediction of protein subcellular localization using deep learning","volume":"33","author":"Armenteros","year":"2017","journal-title":"Bioinformatics"},{"key":"2023062312015606300_btaa156-B3","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1038\/s41587-019-0036-z","article-title":"Signalp 5.0 improves signal peptide predictions using deep neural networks","volume":"37","author":"Armenteros","year":"2019","journal-title":"Nat. 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