{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T00:27:42Z","timestamp":1787012862867,"version":"build-2736575974"},"reference-count":114,"publisher":"Institute of Electrical and Electronics Engineers (IEEE)","issue":"3","license":[{"start":{"date-parts":[[2024,5,1]],"date-time":"2024-05-01T00:00:00Z","timestamp":1714521600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/ieeexplore.ieee.org\/Xplorehelp\/downloads\/license-information\/IEEE.html"},{"start":{"date-parts":[[2024,5,1]],"date-time":"2024-05-01T00:00:00Z","timestamp":1714521600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2024,5,1]],"date-time":"2024-05-01T00:00:00Z","timestamp":1714521600000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"}],"funder":[{"DOI":"10.13039\/501100010218","name":"Department of Science and Technology","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100010218","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Ministry of Electronics and Information Technology (MeitY), Government of India","award":["DST\/NSM\/R&D_HPC_Applications\/2021\/03.41, PA"],"award-info":[{"award-number":["DST\/NSM\/R&D_HPC_Applications\/2021\/03.41, PA"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEEE\/ACM Trans. Comput. Biol. and Bioinf."],"published-print":{"date-parts":[[2024,5]]},"DOI":"10.1109\/tcbb.2024.3371984","type":"journal-article","created":{"date-parts":[[2024,3,1]],"date-time":"2024-03-01T13:45:43Z","timestamp":1709300743000},"page":"439-449","source":"Crossref","is-referenced-by-count":2,"title":["Computational Prediction of Potential Vaccine Candidates From tRNA Encoded peptides (tREP) Using a Bioinformatic Workflow and Molecular Dynamics Validations"],"prefix":"10.1109","volume":"21","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6605-0965","authenticated-orcid":false,"given":"Pallavi M.","family":"Shanthappa","sequence":"first","affiliation":[{"name":"Department of Computer Science, School of Computing, Amrita Vishwa Vidyapeetham, Mysuru, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1698-3251","authenticated-orcid":false,"given":"Neeraj","family":"Verma","sequence":"additional","affiliation":[{"name":"School of Biotechnology, Jawaharlal Nehru University, New Delhi, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0003-8091-8419","authenticated-orcid":false,"given":"Anu","family":"George","sequence":"additional","affiliation":[{"name":"Department of computer science and Engineering, Amrita School of Engineering, Amrita Vishwa Vidyapeetham, Bengaluru, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4032-7679","authenticated-orcid":false,"given":"Pawan K.","family":"Dhar","sequence":"additional","affiliation":[{"name":"School of Biotechnology, Jawaharlal Nehru University, New Delhi, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5731-0291","authenticated-orcid":false,"given":"Prashanth","family":"Athri","sequence":"additional","affiliation":[{"name":"Department of Computer Science and Engineering, PES University, Bengaluru, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"263","reference":[{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1038\/s41392-019-0092-3"},{"key":"ref2","doi-asserted-by":"publisher","DOI":"10.1038\/nchembio.1120"},{"key":"ref3","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.0050106"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.3390\/genes9120607"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.3389\/fphar.2020.572941"},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.aau5516"},{"key":"ref7","doi-asserted-by":"publisher","DOI":"10.1007\/s00018-017-2628-4"},{"key":"ref8","doi-asserted-by":"publisher","DOI":"10.1186\/1754-1611-3-2"},{"key":"ref9","doi-asserted-by":"publisher","DOI":"10.1007\/s11693-014-9148-4"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.3390\/life5041638"},{"key":"ref11","doi-asserted-by":"publisher","DOI":"10.1007\/s00018-020-03720-7"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1021\/acsomega.2c00661"},{"key":"ref13","doi-asserted-by":"publisher","DOI":"10.1080\/21645515.2015.1061159"},{"key":"ref14","doi-asserted-by":"publisher","DOI":"10.1016\/j.vaccine.2019.04.096"},{"key":"ref15","doi-asserted-by":"publisher","DOI":"10.1016\/j.vaccine.2018.05.106"},{"key":"ref16","doi-asserted-by":"publisher","DOI":"10.1016\/j.vaccine.2020.08.045"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1517\/17460441.2.1.19"},{"key":"ref18","doi-asserted-by":"publisher","DOI":"10.1080\/17460441.2018.1413088"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.1021\/jm050362n"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.1063\/1.1999637"},{"key":"ref21","doi-asserted-by":"publisher","DOI":"10.1021\/jm040787u"},{"issue":"1","key":"ref22","first-page":"127","article-title":"Amber 2015, 2015","volume":"8","author":"Case","year":"2015","journal-title":"Univ. California, San Francisco. S2J. R. Engen, TE Wales, Annu. Rev. Anal. Chem."},{"key":"ref23","doi-asserted-by":"publisher","DOI":"10.2142\/biophysico.13.0_181"},{"key":"ref24","doi-asserted-by":"publisher","DOI":"10.1063\/1.5018116"},{"key":"ref25","doi-asserted-by":"publisher","DOI":"10.1021\/ar000033j"},{"key":"ref26","doi-asserted-by":"publisher","DOI":"10.1021\/acs.langmuir.9b03832"},{"key":"ref27","doi-asserted-by":"publisher","DOI":"10.1016\/S0022-2836(05)80360-2"},{"key":"ref28","doi-asserted-by":"publisher","DOI":"10.3390\/vaccines9070732"},{"key":"ref29","doi-asserted-by":"publisher","DOI":"10.1016\/j.mpmed.2009.08.005"},{"key":"ref30","doi-asserted-by":"publisher","DOI":"10.3201\/eid1908.130465"},{"key":"ref31","doi-asserted-by":"publisher","DOI":"10.1016\/j.heliyon.2021.e06396"},{"key":"ref32","doi-asserted-by":"publisher","DOI":"10.3389\/fmolb.2020.00227"},{"key":"ref33","doi-asserted-by":"publisher","DOI":"10.1093\/bib\/bbaa340"},{"issue":"3","key":"ref34","first-page":"467","article-title":"Novel in silico tools for designing peptide-based subunit vaccines and immunotherapeutics","volume":"18","author":"Dhanda","year":"2017","journal-title":"Brief. Bioinf."},{"key":"ref35","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkv1309"},{"key":"ref36","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw413"},{"key":"ref37","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn787"},{"key":"ref38","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/25.5.955"},{"key":"ref39","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkz268"},{"key":"ref40","doi-asserted-by":"publisher","DOI":"10.1016\/S0168-9525(00)02024-2"},{"key":"ref41","doi-asserted-by":"publisher","DOI":"10.1007\/s13205-019-2044-6"},{"key":"ref42","doi-asserted-by":"publisher","DOI":"10.1007\/s00438-020-01731-4"},{"key":"ref43","doi-asserted-by":"publisher","DOI":"10.1155\/2016\/7562085"},{"key":"ref44","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-8-4"},{"key":"ref45","doi-asserted-by":"publisher","DOI":"10.1016\/j.vaccine.2006.09.032"},{"key":"ref46","doi-asserted-by":"publisher","DOI":"10.2174\/1875035400801010022"},{"key":"ref47","doi-asserted-by":"publisher","DOI":"10.1186\/s12967-019-2116-8"},{"key":"ref48","doi-asserted-by":"publisher","DOI":"10.1016\/j.virusres.2020.198082"},{"key":"ref49","doi-asserted-by":"publisher","DOI":"10.1155\/2018\/6718083"},{"key":"ref50","doi-asserted-by":"publisher","DOI":"10.2147\/AABC.S115859"},{"key":"ref51","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-8-424"},{"key":"ref52","doi-asserted-by":"publisher","DOI":"10.1002\/eji.200425811"},{"key":"ref53","doi-asserted-by":"publisher","DOI":"10.1110\/ps.0239403"},{"key":"ref54","doi-asserted-by":"publisher","DOI":"10.1034\/j.1399-0039.2003.00112.x"},{"key":"ref55","doi-asserted-by":"publisher","DOI":"10.1007\/s00251-005-0781-7"},{"key":"ref56","doi-asserted-by":"publisher","DOI":"10.4049\/jimmunol.171.4.1741"},{"key":"ref57","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0073957"},{"key":"ref58","doi-asserted-by":"publisher","DOI":"10.3390\/molecules25215088"},{"key":"ref59","doi-asserted-by":"publisher","DOI":"10.1016\/j.biologicals.2019.03.003"},{"key":"ref60","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-59745-419-3_10"},{"key":"ref61","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-15-282"},{"key":"ref62","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bth261"},{"key":"ref63","doi-asserted-by":"publisher","DOI":"10.1021\/ac802324f"},{"key":"ref64","doi-asserted-by":"publisher","DOI":"10.1007\/s00894-014-2278-5"},{"key":"ref65","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn159"},{"key":"ref66","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1006"},{"key":"ref67","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-8-361"},{"key":"ref68","doi-asserted-by":"publisher","DOI":"10.1016\/j.biologicals.2018.02.003"},{"key":"ref69","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1003266"},{"key":"ref70","doi-asserted-by":"publisher","DOI":"10.1098\/rsob.120139"},{"key":"ref71","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv639"},{"key":"ref72","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn202"},{"key":"ref73","doi-asserted-by":"publisher","DOI":"10.1016\/j.tibtech.2006.10.001"},{"key":"ref74","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btn128"},{"key":"ref75","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkz1029"},{"key":"ref76","doi-asserted-by":"publisher","DOI":"10.4049\/jimmunol.153.12.5586"},{"key":"ref77","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-540-30220-9_16"},{"key":"ref78","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-568"},{"key":"ref79","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1000048"},{"key":"ref80","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw329"},{"key":"ref81","doi-asserted-by":"publisher","DOI":"10.1021\/ct500592m"},{"key":"ref82","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gks419"},{"key":"ref83","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/28.1.235"},{"key":"ref84","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1004"},{"key":"ref85","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gku1214"},{"key":"ref86","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2020.02008"},{"key":"ref87","doi-asserted-by":"publisher","DOI":"10.1016\/j.aej.2021.01.046"},{"key":"ref88","doi-asserted-by":"publisher","DOI":"10.1111\/j.1399-0039.2010.01466.x"},{"key":"ref89","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-59745-535-0_4"},{"key":"ref90","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1049"},{"key":"ref91","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh131"},{"key":"ref92","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.RA119.008937"},{"issue":"1","key":"ref93","first-page":"82","article-title":"PyMOL: An open-source molecular graphics tool","volume":"40","author":"DeLano","year":"2002","journal-title":"CCP4 Newslett. Protein Crystallogr."},{"key":"ref94","doi-asserted-by":"publisher","DOI":"10.1016\/j.jmb.2015.09.014"},{"key":"ref95","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2020.01663"},{"key":"ref96","doi-asserted-by":"publisher","DOI":"10.3390\/v11010063"},{"key":"ref97","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-67749-1"},{"key":"ref98","doi-asserted-by":"publisher","DOI":"10.1016\/S0959-440X(02)00344-5"},{"key":"ref99","doi-asserted-by":"publisher","DOI":"10.1002\/jcc.20084"},{"key":"ref100","doi-asserted-by":"publisher","DOI":"10.1002\/prot.26018"},{"key":"ref101","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.17456.1"},{"key":"ref102","doi-asserted-by":"publisher","DOI":"10.1002\/jcc.20291"},{"key":"ref103","doi-asserted-by":"publisher","DOI":"10.1002\/prot.22711"},{"key":"ref104","doi-asserted-by":"publisher","DOI":"10.1002\/elps.1150181505"},{"key":"ref105","doi-asserted-by":"publisher","DOI":"10.1021\/jp003020w"},{"key":"ref106","doi-asserted-by":"publisher","DOI":"10.1002\/(SICI)1096-987X(199709)18:12<1463::AID-JCC4>3.0.CO;2-H"},{"key":"ref107","doi-asserted-by":"publisher","DOI":"10.1002\/jcc.540130805"},{"key":"ref108","doi-asserted-by":"publisher","DOI":"10.1007\/s10822-016-0005-2"},{"key":"ref109","article-title":"XMGRACE, version 5.1. 19","volume":"2","author":"Turner","year":"2005"},{"key":"ref110","doi-asserted-by":"publisher","DOI":"10.1016\/0263-7855(96)00018-5"},{"key":"ref111","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jctc.1c00645"},{"key":"ref112","doi-asserted-by":"publisher","DOI":"10.1021\/ct300418h"},{"key":"ref113","doi-asserted-by":"publisher","DOI":"10.1002\/prot.20033"},{"key":"ref114","doi-asserted-by":"publisher","DOI":"10.1021\/acs.chemrev.9b00472"}],"container-title":["IEEE\/ACM Transactions on Computational Biology and Bioinformatics"],"original-title":[],"link":[{"URL":"http:\/\/xplorestaging.ieee.org\/ielx7\/8857\/10550082\/10457940.pdf?arnumber=10457940","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,9,6]],"date-time":"2024-09-06T02:59:06Z","timestamp":1725591546000},"score":1,"resource":{"primary":{"URL":"https:\/\/ieeexplore.ieee.org\/document\/10457940\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,5]]},"references-count":114,"journal-issue":{"issue":"3"},"URL":"https:\/\/doi.org\/10.1109\/tcbb.2024.3371984","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":[[2024,5]]}}}