{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,1]],"date-time":"2026-08-01T18:07:53Z","timestamp":1785607673078,"version":"3.56.0"},"reference-count":39,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2024,12,1]],"date-time":"2024-12-01T00:00:00Z","timestamp":1733011200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2024,12,1]],"date-time":"2024-12-01T00:00:00Z","timestamp":1733011200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2024,11,11]],"date-time":"2024-11-11T00:00:00Z","timestamp":1731283200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Biochemistry and Biophysics Reports"],"published-print":{"date-parts":[[2024,12]]},"DOI":"10.1016\/j.bbrep.2024.101871","type":"journal-article","created":{"date-parts":[[2024,11,18]],"date-time":"2024-11-18T09:36:51Z","timestamp":1731922611000},"page":"101871","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":4,"special_numbering":"C","title":["Design of a novel multi-epitope vaccine candidate against Yersinia pestis using advanced immunoinformatics approaches: An in silico study"],"prefix":"10.1016","volume":"40","author":[{"given":"Mohamed J.","family":"Saadh","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hanan Hassan","family":"Ahmed","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Radhwan Abdul","family":"Kareem","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lalji","family":"Baldaniya","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lokesh","family":"Verma","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"G.V. Siva","family":"Prasad","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mamata","family":"Chahar","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Waam Mohammed","family":"Taher","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mariem","family":"Alwan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mahmood Jasem","family":"Jawad","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Atheer Khdyair","family":"Hamad","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.bbrep.2024.101871_bib1","doi-asserted-by":"crossref","first-page":"e3","DOI":"10.1371\/journal.pmed.0050003","article-title":"Plague: past, present, and future","volume":"5","author":"Stenseth","year":"2008","journal-title":"PLoS Med."},{"key":"10.1016\/j.bbrep.2024.101871_bib2","doi-asserted-by":"crossref","first-page":"165","DOI":"10.1078\/1438-4639-00259","article-title":"The history of the plague and the research on the causative agent Yersinia pestis","volume":"207","author":"Zietz","year":"2004","journal-title":"Int. J. Hyg Environ. Health"},{"key":"10.1016\/j.bbrep.2024.101871_bib3","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1128\/CMR.10.1.35","article-title":"Yersinia pestis--etiologic agent of plague","volume":"10","author":"Perry","year":"1997","journal-title":"Clin. Microbiol. Rev."},{"key":"10.1016\/j.bbrep.2024.101871_bib4","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1093\/cid\/ciq107","article-title":"A dog-associated primary pneumonic plague in Qinghai Province, China","volume":"52","author":"Wang","year":"2011","journal-title":"Clin. Infect. Dis. an Off. Publ. Infect. Dis. Soc. Am."},{"key":"10.1016\/j.bbrep.2024.101871_bib5","volume":"vol. 1372","author":"Rocke","year":"2012"},{"key":"10.1016\/j.bbrep.2024.101871_bib6","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.00623-12","article-title":"A decade of plague in Mahajanga, Madagascar: insights into the global maritime spread of pandemic plague","volume":"4","author":"Vogler","year":"2013","journal-title":"mBio"},{"key":"10.1016\/j.bbrep.2024.101871_bib7","first-page":"89","volume":"91","year":"2016","journal-title":"Relev. Epidemiol. Hebd"},{"key":"10.1016\/j.bbrep.2024.101871_bib8","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1038\/nrmicro.2015.29","article-title":"\u201cAdd, stir and reduce\u201d: Yersinia spp. as model bacteria for pathogen evolution","volume":"14","author":"McNally","year":"2016","journal-title":"Nat. Rev. Microbiol."},{"key":"10.1016\/j.bbrep.2024.101871_bib9","doi-asserted-by":"crossref","first-page":"677","DOI":"10.1056\/NEJM199709043371004","article-title":"Multidrug resistance in Yersinia pestis mediated by a transferable plasmid","volume":"337","author":"Galimand","year":"1997","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.bbrep.2024.101871_bib10","doi-asserted-by":"crossref","first-page":"43","DOI":"10.3201\/eid0701.010106","article-title":"Transferable plasmid-mediated resistance to streptomycin in a clinical isolate of Yersinia pestis","volume":"7","author":"Guiyoule","year":"2001","journal-title":"Emerg. Infect. Dis."},{"key":"10.1016\/j.bbrep.2024.101871_bib11","article-title":"Development of an ancestral DC and TLR4-inducing multi-epitope peptide vaccine against the spike protein of SARS-CoV and SARS-CoV-2 using the advanced immunoinformatics approaches","volume":"39","author":"Aram","year":"2024","journal-title":"Biochem. Biophys. Reports."},{"key":"10.1016\/j.bbrep.2024.101871_bib12","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1007\/978-1-4939-1115-8_3","article-title":"Immunoinformatics: a brief review","volume":"1184","author":"Tomar","year":"2014","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.bbrep.2024.101871_bib13","doi-asserted-by":"crossref","first-page":"13","DOI":"10.2147\/ITT.S241064","article-title":"Immunoinformatics and vaccine development: an overview","volume":"9","author":"Oli","year":"2020","journal-title":"ImmunoTargets Ther."},{"key":"10.1016\/j.bbrep.2024.101871_bib14","doi-asserted-by":"crossref","first-page":"3022","DOI":"10.1093\/molbev\/msab120","article-title":"MEGA11: molecular evolutionary genetics analysis version 11","volume":"38","author":"Tamura","year":"2021","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/j.bbrep.2024.101871_bib15","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1186\/1471-2105-8-4","article-title":"VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines","volume":"8","author":"Doytchinova","year":"2007","journal-title":"BMC Bioinf."},{"key":"10.1016\/j.bbrep.2024.101871_bib16","doi-asserted-by":"crossref","first-page":"2278","DOI":"10.1007\/s00894-014-2278-5","article-title":"AllerTOP v.2--a server for in silico prediction of allergens","volume":"20","author":"Dimitrov","year":"2014","journal-title":"J. Mol. Model."},{"key":"10.1016\/j.bbrep.2024.101871_bib17","doi-asserted-by":"crossref","first-page":"3098","DOI":"10.1093\/bioinformatics\/btx345","article-title":"Protein-Sol: a web tool for predicting protein solubility from sequence","volume":"33","author":"Hebditch","year":"2017","journal-title":"Bioinformatics"},{"key":"10.1016\/j.bbrep.2024.101871_bib18","doi-asserted-by":"crossref","first-page":"2200","DOI":"10.1093\/bioinformatics\/btp386","article-title":"SOLpro: accurate sequence-based prediction of protein solubility","volume":"25","author":"Magnan","year":"2009","journal-title":"Bioinformatics"},{"key":"10.1016\/j.bbrep.2024.101871_bib19","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1007\/978-1-4939-2285-7_7","article-title":"Peptide toxicity prediction","volume":"1268","author":"Gupta","year":"2015","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.bbrep.2024.101871_bib20","doi-asserted-by":"crossref","first-page":"W526","DOI":"10.1093\/nar\/gkh468","article-title":"Protein structure prediction and analysis using the Robetta server","volume":"32","author":"Kim","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.bbrep.2024.101871_bib21","doi-asserted-by":"crossref","first-page":"W294","DOI":"10.1093\/nar\/gks493","article-title":"GalaxyWEB server for protein structure prediction and refinement","volume":"40","author":"Ko","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.bbrep.2024.101871_bib22","doi-asserted-by":"crossref","first-page":"W407","DOI":"10.1093\/nar\/gkm290","article-title":"ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins","volume":"35","author":"Wiederstein","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.bbrep.2024.101871_bib23","doi-asserted-by":"crossref","first-page":"514","DOI":"10.1186\/1471-2105-9-514","article-title":"ElliPro: a new structure-based tool for the prediction of antibody epitopes","volume":"9","author":"Ponomarenko","year":"2008","journal-title":"BMC Bioinf."},{"key":"10.1016\/j.bbrep.2024.101871_bib24","doi-asserted-by":"crossref","first-page":"255","DOI":"10.1038\/nprot.2016.169","article-title":"The ClusPro web server for protein-protein docking","volume":"12","author":"Kozakov","year":"2017","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.bbrep.2024.101871_bib25","doi-asserted-by":"crossref","first-page":"129","DOI":"10.1002\/pro.3289","article-title":"PDBsum: structural summaries of PDB entries","volume":"27","author":"Laskowski","year":"2018","journal-title":"Protein Sci."},{"key":"10.1016\/j.bbrep.2024.101871_bib26","doi-asserted-by":"crossref","DOI":"10.1016\/j.heliyon.2024.e30898","article-title":"Matrix metalloproteinase\/Fas ligand (MMP\/FasL) interaction dynamics in COVID-19: an emin silico em study and neuroimmune perspective","volume":"10","author":"Saleki","year":"2024","journal-title":"Heliyon"},{"key":"10.1016\/j.bbrep.2024.101871_bib27","doi-asserted-by":"crossref","first-page":"W271","DOI":"10.1093\/nar\/gku339","article-title":"iMODS: internal coordinates normal mode analysis server","volume":"42","author":"L\u00f3pez-Blanco","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.bbrep.2024.101871_bib28","doi-asserted-by":"crossref","first-page":"2013","DOI":"10.1093\/bioinformatics\/btr335","article-title":"Immune system simulation online","volume":"27","author":"Rapin","year":"2011","journal-title":"Bioinformatics"},{"key":"10.1016\/j.bbrep.2024.101871_bib29","doi-asserted-by":"crossref","first-page":"W526","DOI":"10.1093\/nar\/gki376","article-title":"JCat: a novel tool to adapt codon usage of a target gene to its potential expression host","volume":"33","author":"Grote","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.bbrep.2024.101871_bib30","first-page":"24","article-title":"Yersinia pestis antibiotic resistance: a systematic review., Osong Public Heal","volume":"13","author":"Lei","year":"2022","journal-title":"Res. Perspect."},{"key":"10.1016\/j.bbrep.2024.101871_bib31","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1007\/978-981-16-8969-7_5","article-title":"Vaccines and immunoinformatics for vaccine design","volume":"1368","author":"Joon","year":"2022","journal-title":"Adv. Exp. Med. Biol."},{"key":"10.1016\/j.bbrep.2024.101871_bib32","doi-asserted-by":"crossref","DOI":"10.3390\/computation10070117","article-title":"Bioinformatics, computational informatics, and modeling approaches to the design of mRNA COVID-19 vaccine candidates","volume":"10","author":"Oluwagbemi","year":"2022","journal-title":"Computation"},{"key":"10.1016\/j.bbrep.2024.101871_bib33","doi-asserted-by":"crossref","first-page":"18103","DOI":"10.1039\/D1RA02885E","article-title":"Immunoinformatics-guided design of a multi-epitope vaccine based on the structural proteins of severe acute respiratory syndrome coronavirus 2","volume":"11","author":"Obaidullah","year":"2021","journal-title":"RSC Adv."},{"key":"10.1016\/j.bbrep.2024.101871_bib34","doi-asserted-by":"crossref","DOI":"10.3389\/fimmu.2022.1042997","article-title":"Immunoinformatic-based design of immune-boosting multiepitope subunit vaccines against monkeypox virus and validation through molecular dynamics and immune simulation","volume":"13","author":"Suleman","year":"2022","journal-title":"Front. Immunol."},{"key":"10.1016\/j.bbrep.2024.101871_bib35","doi-asserted-by":"crossref","first-page":"32043","DOI":"10.1021\/acsomega.1c04817","article-title":"Designing of a multi-epitope vaccine against the structural proteins of Marburg virus exploiting the immunoinformatics approach","volume":"6","author":"Sami","year":"2021","journal-title":"ACS Omega"},{"key":"10.1016\/j.bbrep.2024.101871_bib36","doi-asserted-by":"crossref","DOI":"10.3390\/vaccines9111327","article-title":"Annotation of potential vaccine targets and design of a multi-epitope subunit vaccine against Yersinia pestis through reverse vaccinology and validation through an agent-based modeling approach","volume":"9","author":"Haq","year":"2021","journal-title":"Vaccines."},{"key":"10.1016\/j.bbrep.2024.101871_bib37","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1038\/s41541-018-0087-z","article-title":"Targeting of the Yersinia pestis F1 capsular antigen by innate-like B1b cells mediates a rapid protective response against bubonic plague","volume":"3","author":"Levy","year":"2018","journal-title":"Npj Vaccines"},{"key":"10.1016\/j.bbrep.2024.101871_bib38","doi-asserted-by":"crossref","first-page":"5395","DOI":"10.1128\/IAI.67.10.5395-5408.1999","article-title":"Virulence role of V antigen of Yersinia pestis at the bacterial surface","volume":"67","author":"Fields","year":"1999","journal-title":"Infect. Immun."},{"key":"10.1016\/j.bbrep.2024.101871_bib39","doi-asserted-by":"crossref","DOI":"10.3390\/biom10121694","article-title":"Yersinia outer membrane vesicles as potential vaccine candidates in protecting against plague","volume":"10","author":"Byvalov","year":"2020","journal-title":"Biomolecules"}],"container-title":["Biochemistry and Biophysics Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2405580824002358?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2405580824002358?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2024,12,3]],"date-time":"2024-12-03T14:23:30Z","timestamp":1733235810000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S2405580824002358"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,12]]},"references-count":39,"alternative-id":["S2405580824002358"],"URL":"https:\/\/doi.org\/10.1016\/j.bbrep.2024.101871","relation":{},"ISSN":["2405-5808"],"issn-type":[{"value":"2405-5808","type":"print"}],"subject":[],"published":{"date-parts":[[2024,12]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Design of a novel multi-epitope vaccine candidate against Yersinia pestis using advanced immunoinformatics approaches: An in silico study","name":"articletitle","label":"Article Title"},{"value":"Biochemistry and Biophysics Reports","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.bbrep.2024.101871","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2024 Published by Elsevier B.V.","name":"copyright","label":"Copyright"}],"article-number":"101871"}}