{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,11]],"date-time":"2026-07-11T03:12:48Z","timestamp":1783739568186,"version":"3.55.0"},"reference-count":28,"publisher":"Oxford University Press (OUP)","issue":"16","license":[{"start":{"date-parts":[[2019,1,2]],"date-time":"2019-01-02T00:00:00Z","timestamp":1546387200000},"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\/501100004281","name":"Polish National Science Centre","doi-asserted-by":"publisher","award":["2015\/18\/E\/NZ1\/00689"],"award-info":[{"award-number":["2015\/18\/E\/NZ1\/00689"]}],"id":[{"id":"10.13039\/501100004281","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Max Planck Society. 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In our benchmarks, DeepCoil significantly outperformed current state-of-the-art tools, such as PCOILS and Marcoil, both in the prediction of canonical and non-canonical coiled coils. Furthermore, in a scan of the human genome with DeepCoil, we detected many coiled-coil domains that remained undetected by other methods. This higher sensitivity of DeepCoil should make it a method of choice for accurate genome-wide detection of coiled-coil domains.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>DeepCoil is written in Python and utilizes the Keras machine learning library. A web server is freely available at https:\/\/toolkit.tuebingen.mpg.de\/#\/tools\/deepcoil and a standalone version can be downloaded at https:\/\/github.com\/labstructbioinf\/DeepCoil.<\/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\/bty1062","type":"journal-article","created":{"date-parts":[[2018,12,27]],"date-time":"2018-12-27T12:08:40Z","timestamp":1545912520000},"page":"2790-2795","source":"Crossref","is-referenced-by-count":202,"title":["DeepCoil\u2014a fast and accurate prediction of coiled-coil domains in protein sequences"],"prefix":"10.1093","volume":"35","author":[{"given":"Jan","family":"Ludwiczak","sequence":"first","affiliation":[{"name":"Laboratory of Structural Bioinformatics, Centre of New Technologies, University of Warsaw, Warsaw, Poland"},{"name":"Laboratory of Bioinformatics, Nencki Institute of Experimental Biology, Warsaw, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aleksander","family":"Winski","sequence":"additional","affiliation":[{"name":"Laboratory of Structural Bioinformatics, Centre of New Technologies, University of Warsaw, Warsaw, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Krzysztof","family":"Szczepaniak","sequence":"additional","affiliation":[{"name":"Laboratory of Structural Bioinformatics, Centre of New Technologies, University of Warsaw, Warsaw, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vikram","family":"Alva","sequence":"additional","affiliation":[{"name":"Department of Protein Evolution, Max Planck Institute for Developmental Biology, T\u00fcbingen, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4581-1558","authenticated-orcid":false,"given":"Stanislaw","family":"Dunin-Horkawicz","sequence":"additional","affiliation":[{"name":"Laboratory of Structural Bioinformatics, Centre of New Technologies, University of Warsaw, Warsaw, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2019,1,2]]},"reference":[{"key":"2023062708582463100_bty1062-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":"2023062708582463100_bty1062-B2","doi-asserted-by":"crossref","first-page":"236","DOI":"10.1016\/j.jsb.2010.02.009","article-title":"A transition from strong right-handed to canonical left-handed supercoiling in a conserved coiled-coil segment of trimeric autotransporter adhesins","volume":"170","author":"Alvarez","year":"2010","journal-title":"J. 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