{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,5]],"date-time":"2026-02-05T11:25:14Z","timestamp":1770290714558,"version":"3.49.0"},"reference-count":65,"publisher":"Institute of Electrical and Electronics Engineers (IEEE)","issue":"4","license":[{"start":{"date-parts":[[2021,7,1]],"date-time":"2021-07-01T00:00:00Z","timestamp":1625097600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/ieeexplore.ieee.org\/Xplorehelp\/downloads\/license-information\/IEEE.html"},{"start":{"date-parts":[[2021,7,1]],"date-time":"2021-07-01T00:00:00Z","timestamp":1625097600000},"content-version":"am","delay-in-days":0,"URL":"https:\/\/ieeexplore.ieee.org\/Xplorehelp\/downloads\/license-information\/IEEE.html"},{"start":{"date-parts":[[2021,7,1]],"date-time":"2021-07-01T00:00:00Z","timestamp":1625097600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2021,7,1]],"date-time":"2021-07-01T00:00:00Z","timestamp":1625097600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"}],"funder":[{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["1453430"],"award-info":[{"award-number":["1453430"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["1741057"],"award-info":[{"award-number":["1741057"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["1841758"],"award-info":[{"award-number":["1841758"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000015","name":"U.S. Department of Energy","doi-asserted-by":"publisher","award":["DE-AC05-00OR22725"],"award-info":[{"award-number":["DE-AC05-00OR22725"]}],"id":[{"id":"10.13039\/100000015","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000015","name":"U.S. Department of Energy","doi-asserted-by":"publisher","award":["DE-AC02-05CH11231"],"award-info":[{"award-number":["DE-AC02-05CH11231"]}],"id":[{"id":"10.13039\/100000015","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEEE\/ACM Trans. Comput. Biol. and Bioinf."],"published-print":{"date-parts":[[2021,7,1]]},"DOI":"10.1109\/tcbb.2019.2945291","type":"journal-article","created":{"date-parts":[[2019,10,4]],"date-time":"2019-10-04T19:47:32Z","timestamp":1570218452000},"page":"1336-1349","source":"Crossref","is-referenced-by-count":4,"title":["A Graphic Encoding Method for Quantitative Classification of Protein Structure and Representation of Conformational Changes"],"prefix":"10.1109","volume":"18","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5823-9909","authenticated-orcid":false,"given":"Hector","family":"Carrillo-Cabada","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5686-2211","authenticated-orcid":false,"given":"Jeremy","family":"Benson","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Asghar M.","family":"Razavi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Brianna","family":"Mulligan","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Michel A.","family":"Cuendet","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Harel","family":"Weinstein","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Michela","family":"Taufer","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7743-8754","authenticated-orcid":false,"given":"Trilce","family":"Estrada","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"263","reference":[{"key":"ref39","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btx780"},{"key":"ref38","first-page":"363","article-title":"De novo structure prediction with deep-learning based scoring","volume":"477","author":"evans","year":"2018","journal-title":"Nature"},{"key":"ref33","doi-asserted-by":"publisher","DOI":"10.1016\/j.drudis.2018.01.039"},{"key":"ref32","doi-asserted-by":"publisher","DOI":"10.1109\/CCGrid.2015.94"},{"key":"ref31","doi-asserted-by":"publisher","DOI":"10.1016\/j.parco.2017.02.005"},{"key":"ref30","article-title":"Multipolar representation of protein structure","volume":"67","author":"gramada","year":"2006","journal-title":"BMC Bioinf"},{"key":"ref37","doi-asserted-by":"publisher","DOI":"10.1016\/j.bpj.2016.11.334"},{"key":"ref36","first-page":"2560","article-title":"Protein secondary structure prediction using cascaded convolutional and recurrent neural networks","author":"li","year":"2016","journal-title":"Proc 25th Int Joint Conf Artif Intell"},{"key":"ref35","doi-asserted-by":"publisher","DOI":"10.4172\/2379-1764.1000139"},{"key":"ref34","doi-asserted-by":"publisher","DOI":"10.2174\/1573406413666170522150940"},{"key":"ref60","doi-asserted-by":"crossref","DOI":"10.31274\/etd-180810-3375","article-title":"A balanced approach to the multi-class imbalance problem","author":"mosley","year":"2013"},{"key":"ref62","doi-asserted-by":"publisher","DOI":"10.1016\/j.str.2017.11.020"},{"key":"ref61","doi-asserted-by":"publisher","DOI":"10.1038\/nature10361"},{"key":"ref63","doi-asserted-by":"publisher","DOI":"10.1109\/ICCV.2017.74"},{"key":"ref28","doi-asserted-by":"publisher","DOI":"10.1145\/2390068.2390078"},{"key":"ref64","doi-asserted-by":"publisher","DOI":"10.1042\/BST20160055"},{"key":"ref27","doi-asserted-by":"publisher","DOI":"10.1145\/2147805.2147837"},{"key":"ref65","doi-asserted-by":"publisher","DOI":"10.1038\/nature14158"},{"key":"ref29","doi-asserted-by":"publisher","DOI":"10.1080\/10629360802085066"},{"key":"ref2","author":"alberts","year":"2002","journal-title":"The Shape and Structure of Proteins"},{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1102727108"},{"key":"ref20","first-page":"235","article-title":"Nucleic acids research","volume":"28","author":"berman","year":"2000","journal-title":"Nature Structural Biology"},{"key":"ref22","doi-asserted-by":"publisher","DOI":"10.1145\/1102351.1102393"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"2386","DOI":"10.1073\/pnas.2628030100","article-title":"A global representation of the protein fold space","volume":"100","author":"hou","year":"2002","journal-title":"Proc Nat Acad Sci United States America"},{"key":"ref24","doi-asserted-by":"publisher","DOI":"10.1145\/2073304.2073338"},{"key":"ref23","first-page":"666","author":"biba","year":"2007","journal-title":"Multi-Class Protein Fold Recognition Through a Symbolic-Statistical Framework"},{"key":"ref26","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2007.70250"},{"key":"ref25","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bti337"},{"key":"ref50","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPS.2014.33"},{"key":"ref51","doi-asserted-by":"publisher","DOI":"10.1002\/jcc.24729"},{"key":"ref59","doi-asserted-by":"publisher","DOI":"10.1038\/75556"},{"key":"ref58","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw1108"},{"key":"ref57","article-title":"Gene ontology consortium","author":"consortium","year":"2017"},{"key":"ref56","article-title":"Announcing the worldwide Protein Data Bank","volume":"10","author":"berman","year":"2003","journal-title":"Nature Structural Biology"},{"key":"ref55","doi-asserted-by":"publisher","DOI":"10.1529\/biophysj.107.117770"},{"key":"ref54","doi-asserted-by":"publisher","DOI":"10.1002\/bip.360240906"},{"key":"ref53","first-page":"173","article-title":"Conformation of biological molecules and polymers","author":"ooi","year":"1973","journal-title":"Jerusalem Symposia Quantum Chemistry Biochemistry"},{"key":"ref52","doi-asserted-by":"publisher","DOI":"10.1016\/S0022-2836(63)80023-6"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.1007\/s11263-015-0816-y"},{"key":"ref11","doi-asserted-by":"publisher","DOI":"10.1145\/3233547.3233607"},{"key":"ref40","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2017.2784434"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1109\/CVPR.2016.90"},{"key":"ref13","doi-asserted-by":"publisher","DOI":"10.1016\/0022-2836(81)90087-5"},{"key":"ref14","doi-asserted-by":"publisher","DOI":"10.1016\/0022-2836(70)90057-4"},{"key":"ref15","first-page":"238","article-title":"A parallel implementation of the needleman-wunsch algorithm for global gapped pair-wise alignment","volume":"17","author":"barkan","year":"2002","journal-title":"J Comput Sci Colleges"},{"key":"ref16","doi-asserted-by":"publisher","DOI":"10.1145\/2884065"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1089\/omi.2011.0101"},{"key":"ref18","doi-asserted-by":"publisher","DOI":"10.1017\/S0033583503003901"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.1016\/j.bbamem.2014.12.002"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btm006"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"1042","DOI":"10.1126\/science.1219021","article-title":"The protein-folding problem, 50 years on","volume":"338","author":"ka","year":"2012","journal-title":"Sci"},{"key":"ref6","author":"garey","year":"1990","journal-title":"Computers and Intractability A Guide to the Theory of NP-Completeness"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.1017\/S0033583511000096"},{"key":"ref8","article-title":"MobileNets: Efficient convolutional neural networks for mobile vision applications","author":"howard","year":"2017","journal-title":"arXiv 1704 04861"},{"key":"ref7","first-page":"2818","article-title":"Rethinking the inception architecture for computer vision","author":"szegedy","year":"2015","journal-title":"Proc IEEE Conf Comput Vis Pattern Recognit"},{"key":"ref49","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2012.64"},{"key":"ref9","article-title":"Very deep convolutional networks for large-scale image recognition","author":"simonyan","year":"2014","journal-title":"arXiv 1409 1556"},{"key":"ref46","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2010.15"},{"key":"ref45","doi-asserted-by":"publisher","DOI":"10.3390\/molecules22101732"},{"key":"ref48","doi-asserted-by":"publisher","DOI":"10.1109\/TITB.2010.2053550"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"398","DOI":"10.1109\/TCBB.2014.2306831","article-title":"Optimizing spaced$k$k-mer neighbors for efficient filtration in protein similarity search","volume":"11","author":"li","year":"2014","journal-title":"IEEE\/ACM Trans Comput Biol Bioinf"},{"key":"ref42","doi-asserted-by":"publisher","DOI":"10.1101\/092890"},{"key":"ref41","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-017-1834-2"},{"key":"ref44","article-title":"Deep recurrent neural network for protein function prediction from sequence","author":"liu","year":"0","journal-title":"arXiv 1701 08318"},{"key":"ref43","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btx624"}],"container-title":["IEEE\/ACM Transactions on Computational Biology and Bioinformatics"],"original-title":[],"link":[{"URL":"https:\/\/ieeexplore.ieee.org\/ielam\/8857\/9508625\/8859247-aam.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"http:\/\/xplorestaging.ieee.org\/ielx7\/8857\/9508625\/08859247.pdf?arnumber=8859247","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,4,8]],"date-time":"2022-04-08T18:51:23Z","timestamp":1649443883000},"score":1,"resource":{"primary":{"URL":"https:\/\/ieeexplore.ieee.org\/document\/8859247\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,7,1]]},"references-count":65,"journal-issue":{"issue":"4"},"URL":"https:\/\/doi.org\/10.1109\/tcbb.2019.2945291","relation":{},"ISSN":["1545-5963","1557-9964","2374-0043"],"issn-type":[{"value":"1545-5963","type":"print"},{"value":"1557-9964","type":"electronic"},{"value":"2374-0043","type":"electronic"}],"subject":[],"published":{"date-parts":[[2021,7,1]]}}}