{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,11]],"date-time":"2026-02-11T03:58:18Z","timestamp":1770782298321,"version":"3.50.0"},"reference-count":51,"publisher":"Institute of Electrical and Electronics Engineers (IEEE)","issue":"1","license":[{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/ieeexplore.ieee.org\/Xplorehelp\/downloads\/license-information\/IEEE.html"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"}],"funder":[{"name":"Scientific and Technological Research Council of Turkey through TUBITAK 3501 Project","award":["122E706"],"award-info":[{"award-number":["122E706"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEEE Trans. Comput. Biol. Bioinform."],"published-print":{"date-parts":[[2026,1]]},"DOI":"10.1109\/tcbbio.2025.3633195","type":"journal-article","created":{"date-parts":[[2025,11,17]],"date-time":"2025-11-17T18:40:23Z","timestamp":1763404823000},"page":"75-88","source":"Crossref","is-referenced-by-count":0,"title":["GAT-HiC: Efficient Reconstruction of 3D Chromosome Structure via Residual Graph Attention Neural Networks"],"prefix":"10.1109","volume":"23","author":[{"ORCID":"https:\/\/orcid.org\/0009-0001-9446-4863","authenticated-orcid":false,"given":"Beyza","family":"Kaya","sequence":"first","affiliation":[{"name":"Artificial Intelligence and Data Engineering Department, Ozyegin University, Istanbul, Türkiye"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9186-0270","authenticated-orcid":false,"given":"Emre","family":"Sefer","sequence":"additional","affiliation":[{"name":"Artificial Intelligence and Data Engineering Department, Ozyegin University, Istanbul, Türkiye"}]}],"member":"263","reference":[{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2007.01.028"},{"key":"ref2","doi-asserted-by":"publisher","DOI":"10.1038\/nature05916"},{"key":"ref3","doi-asserted-by":"publisher","DOI":"10.1126\/science.1152850"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-23038-7_21"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.1126\/science.1067799"},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.1038\/ng1896"},{"key":"ref7","doi-asserted-by":"publisher","DOI":"10.1101\/gr.5571506"},{"key":"ref8","doi-asserted-by":"publisher","DOI":"10.3791\/1869"},{"key":"ref9","doi-asserted-by":"publisher","DOI":"10.1101\/gad.179804.111"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.1126\/science.1181369"},{"key":"ref11","doi-asserted-by":"publisher","DOI":"10.1016\/j.compbiolchem.2025.108534"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-022-04674-2"},{"key":"ref13","doi-asserted-by":"publisher","DOI":"10.1186\/s12575-019-0094-0"},{"key":"ref14","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw1155"},{"key":"ref15","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-018-4546-8"},{"key":"ref16","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btx271"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-019-41369-w"},{"key":"ref18","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-016-3210-4"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-37195-0_31"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-022-08498-5"},{"key":"ref21","doi-asserted-by":"publisher","DOI":"10.1089\/cmb.2015.0210"},{"key":"ref22","doi-asserted-by":"publisher","DOI":"10.1111\/tra.12539"},{"key":"ref23","doi-asserted-by":"publisher","DOI":"10.1016\/j.csbj.2022.12.051"},{"key":"ref24","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-020-03612-4"},{"key":"ref25","doi-asserted-by":"publisher","DOI":"10.1093\/nargab\/lqaf027"},{"key":"ref26","doi-asserted-by":"publisher","DOI":"10.1145\/2939672.2939754"},{"key":"ref27","article-title":"Graph attention networks","author":"Velikovi","year":"2017"},{"key":"ref28","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-12-414"},{"key":"ref29","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1002893"},{"key":"ref30","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu268"},{"key":"ref31","doi-asserted-by":"publisher","DOI":"10.4161\/trns.28447"},{"key":"ref32","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.3104"},{"key":"ref33","doi-asserted-by":"publisher","DOI":"10.1007\/s10614-025-10940-1"},{"key":"ref34","doi-asserted-by":"publisher","DOI":"10.1089\/cmb.2024.0807"},{"key":"ref35","doi-asserted-by":"publisher","DOI":"10.1007\/s00521-025-11586-8"},{"key":"ref36","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-031-82431-9_12"},{"key":"ref37","doi-asserted-by":"publisher","DOI":"10.2174\/0115748936355418250114104026"},{"key":"ref38","doi-asserted-by":"publisher","DOI":"10.1137\/1.9781611978520.6"},{"key":"ref39","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1204799109"},{"key":"ref40","doi-asserted-by":"publisher","DOI":"10.1038\/srep29775"},{"key":"ref41","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0809501106"},{"key":"ref42","doi-asserted-by":"publisher","DOI":"10.1093\/imanum\/drs019"},{"key":"ref43","doi-asserted-by":"publisher","DOI":"10.2144\/btn-2019-0105"},{"key":"ref44","article-title":"How attentive are graph attention networks?","author":"Brody","year":"2021"},{"key":"ref45","article-title":"Adam: A method for stochastic optimization","author":"Diederik","year":"2014"},{"key":"ref46","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2014.11.021"},{"key":"ref47","doi-asserted-by":"publisher","DOI":"10.15252\/msb.20156492"},{"key":"ref48","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymeth.2014.10.031"},{"key":"ref49","doi-asserted-by":"publisher","DOI":"10.1038\/nrm.2016.104"},{"key":"ref50","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-019-1913-y"},{"key":"ref51","doi-asserted-by":"publisher","DOI":"10.1109\/IJCNN52387.2021.9533429"}],"container-title":["IEEE Transactions on Computational Biology and Bioinformatics"],"original-title":[],"link":[{"URL":"http:\/\/xplorestaging.ieee.org\/ielx8\/10723156\/11372637\/11250716.pdf?arnumber=11250716","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,2,9]],"date-time":"2026-02-09T21:04:19Z","timestamp":1770671059000},"score":1,"resource":{"primary":{"URL":"https:\/\/ieeexplore.ieee.org\/document\/11250716\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,1]]},"references-count":51,"journal-issue":{"issue":"1"},"URL":"https:\/\/doi.org\/10.1109\/tcbbio.2025.3633195","relation":{},"ISSN":["2998-4165"],"issn-type":[{"value":"2998-4165","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,1]]}}}