{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,7]],"date-time":"2026-09-07T19:09:24Z","timestamp":1788808164114,"version":"build-2803163510"},"reference-count":145,"publisher":"Springer Science and Business Media LLC","issue":"5","license":[{"start":{"date-parts":[[2026,9,7]],"date-time":"2026-09-07T00:00:00Z","timestamp":1788739200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2026,9,7]],"date-time":"2026-09-07T00:00:00Z","timestamp":1788739200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"DOI":"10.13039\/501100002383","name":"King Saud University","doi-asserted-by":"crossref","award":["ORF\u20102026\u2010552"],"award-info":[{"award-number":["ORF\u20102026\u2010552"]}],"id":[{"id":"10.13039\/501100002383","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Acta Parasit."],"published-print":{"date-parts":[[2026,10]]},"DOI":"10.1007\/s11686-026-01388-w","type":"journal-article","created":{"date-parts":[[2026,9,7]],"date-time":"2026-09-07T06:20:28Z","timestamp":1788762028000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Immunoinformatics Approach for the Designing of a Novel mRNA Vaccine Candidate Against Trypanosoma brucei"],"prefix":"10.1007","volume":"71","author":[{"given":"Monira Swapna","family":"Nil","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shupriti","family":"Khandker","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samia","family":"Sadaf","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nadia","family":"Ahmed","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Salman","family":"Reja","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Md.","family":"Sayfullah","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jannatul","family":"Ferdous","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Suknna","family":"Saha","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Abdulaziz","family":"Alamri","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mohd Shahnawaz","family":"Khan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shakil","family":"Ahmed","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shah","family":"Wajed","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ahmad Abdullah","family":"Mahdeen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0936-6653","authenticated-orcid":false,"given":"Noimul Hasan","family":"Siddiquee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,9,7]]},"reference":[{"issue":"10110","key":"1388_CR1","doi-asserted-by":"publisher","first-page":"2397","DOI":"10.1016\/S0140-6736(17)31510-6","volume":"390","author":"P B\u00fcscher","year":"2017","unstructured":"B\u00fcscher P, Cecchi G, Jamonneau V, Priotto G (2017) Human African trypanosomiasis. Lancet 390(10110):2397\u20132409. https:\/\/doi.org\/10.1016\/S0140-6736(17)31510-6","journal-title":"Lancet"},{"key":"1388_CR2","doi-asserted-by":"publisher","first-page":"947078","DOI":"10.3389\/fmolb.2022.947078","volume":"9","author":"M Jamabo","year":"2022","unstructured":"Jamabo M, Bentley SJ, Macucule-Tinga P, Tembo P, Edkins AL, Boshoff A (2022) In silico analysis of the HSP90 chaperone system from the African trypanosome, Trypanosoma brucei. Front Mol Biosci 9:947078. https:\/\/doi.org\/10.3389\/fmolb.2022.947078","journal-title":"Front Mol Biosci"},{"key":"1388_CR3","doi-asserted-by":"publisher","first-page":"5574","DOI":"10.1016\/j.csbj.2022.10.002","volume":"20","author":"AU Danazumi","year":"2022","unstructured":"Danazumi AU, Gital SI, Idris S, Dibba LBS, Balogun EO, G\u00f3rna MW (2022) Immunoinformatic design of a putative multi-epitope vaccine candidate against Trypanosoma brucei gambiense. Comput Struct Biotechnol J 20:5574\u20135585. https:\/\/doi.org\/10.1016\/j.csbj.2022.10.002","journal-title":"Comput Struct Biotechnol J"},{"key":"1388_CR4","doi-asserted-by":"publisher","first-page":"1087003","DOI":"10.3389\/FITD.2023.1087003\/FULL","volume":"4","author":"R Papagni","year":"2023","unstructured":"Papagni R et al (2023) Human African Trypanosomiasis (sleeping sickness): Current knowledge and future challenges. Front Trop Dis 4:1087003. https:\/\/doi.org\/10.3389\/FITD.2023.1087003\/FULL","journal-title":"Front Trop Dis"},{"key":"1388_CR5","doi-asserted-by":"publisher","DOI":"10.3389\/FIMMU.2016.00233","author":"B Stijlemans","year":"2016","unstructured":"Stijlemans B, Caljon G, Van Den Abbeele J, Van Ginderachter JA, Magez S, De Trez C (2016) Immune evasion strategies of trypanosoma brucei within the mammalian host: progression to pathogenicity. Front Immunol. https:\/\/doi.org\/10.3389\/FIMMU.2016.00233","journal-title":"Front Immunol"},{"issue":"10","key":"1388_CR6","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pntd.0006002","volume":"11","author":"SA Bukachi","year":"2017","unstructured":"Bukachi SA, Wandibba S, Nyamongo IK (2017) The socio-economic burden of human African trypanosomiasis and the coping strategies of households in the South Western Kenya foci. PLoS Negl Trop Dis 11(10):1\u201321. https:\/\/doi.org\/10.1371\/journal.pntd.0006002","journal-title":"PLoS Negl Trop Dis"},{"key":"1388_CR7","doi-asserted-by":"publisher","DOI":"10.1371\/JOURNAL.PNTD.0010047","author":"JR Franco","year":"2020","unstructured":"Franco JR et al (2020) The elimination of human African trypanosomiasis: achievements in relation to WHO road map targets for 2020. PLoS Negl Trop Dis. https:\/\/doi.org\/10.1371\/JOURNAL.PNTD.0010047","journal-title":"PLoS Negl Trop Dis"},{"issue":"4","key":"1388_CR8","doi-asserted-by":"publisher","first-page":"e0005454","DOI":"10.1371\/journal.pntd.0005454","volume":"11","author":"S Aksoy","year":"2017","unstructured":"Aksoy S, Buscher P, Lehane M, Solano P, Van Den Abbeele J (2017) Human African trypanosomiasis control: achievements and challenges. PLoS Negl Trop Dis 11(4):e0005454. https:\/\/doi.org\/10.1371\/journal.pntd.0005454","journal-title":"PLoS Negl Trop Dis"},{"key":"1388_CR9","doi-asserted-by":"publisher","DOI":"10.1371\/JOURNAL.PNTD.0012091","author":"MP Barrettid","year":"2024","unstructured":"Barrettid MP, Priotto G, Franco JR, Lejon V, Lindner AK (2024) Elimination of human African trypanosomiasis: The long last mile. PLoS Negl Trop Dis. https:\/\/doi.org\/10.1371\/JOURNAL.PNTD.0012091","journal-title":"PLoS Negl Trop Dis"},{"key":"1388_CR10","doi-asserted-by":"publisher","DOI":"10.1186\/s12942-015-0013-9","author":"C Lumbala","year":"2015","unstructured":"Lumbala C et al (2015) Human African trypanosomiasis in the Democratic Republic of the Congo: disease distribution and risk. Int J Health Geogr. https:\/\/doi.org\/10.1186\/s12942-015-0013-9","journal-title":"Int J Health Geogr"},{"issue":"5","key":"1388_CR11","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pntd.0008261","volume":"14","author":"JR Franco","year":"2020","unstructured":"Franco JR et al (2020) Monitoring the elimination of human African trypanosomiasis at continental and country level: update to 2018. PLoS Negl Trop Dis 14(5):1\u201318. https:\/\/doi.org\/10.1371\/journal.pntd.0008261","journal-title":"PLoS Negl Trop Dis"},{"issue":"2","key":"1388_CR12","doi-asserted-by":"publisher","first-page":"421","DOI":"10.1093\/jme\/tjab225","volume":"59","author":"I Bemba","year":"2022","unstructured":"Bemba I, Bamou R, Lenga A, Okoko A, Awono-Ambene P, Antonio-Nkondjio C (2022) Review of the situation of human African trypanosomiasis in the Republic of Congo from the 1950s to 2020. J Med Entomol 59(2):421\u2013429. https:\/\/doi.org\/10.1093\/jme\/tjab225","journal-title":"J Med Entomol"},{"issue":"9","key":"1388_CR13","doi-asserted-by":"publisher","first-page":"922","DOI":"10.1017\/S0031182020000645","volume":"147","author":"JM Gao","year":"2020","unstructured":"Gao JM, Qian ZY, Hide G, Lai DH, Lun ZR, Wu ZD (2020) Human African trypanosomiasis: the current situation in endemic regions and the risks for non-endemic regions from imported cases. Parasitology 147(9):922\u2013931. https:\/\/doi.org\/10.1017\/S0031182020000645","journal-title":"Parasitology"},{"issue":"4","key":"1388_CR14","doi-asserted-by":"publisher","first-page":"222","DOI":"10.1007\/S40475-023-00304-W","volume":"10","author":"Y Ortiz-Mart\u00ednez","year":"2023","unstructured":"Ortiz-Mart\u00ednez Y, Kouam\u00e9 MG, Bongomin F, Lakoh S, Henao-Mart\u00ednez AF (2023) Human African trypanosomiasis (sleeping sickness)-epidemiology, clinical manifestations, diagnosis, treatment, and prevention. Curr Trop Med Rep 10(4):222\u2013234. https:\/\/doi.org\/10.1007\/S40475-023-00304-W","journal-title":"Curr Trop Med Rep"},{"key":"1388_CR15","doi-asserted-by":"publisher","DOI":"10.4103\/0972-9062.310860","author":"KU Ozioko","year":"2020","unstructured":"Ozioko KU et al (2020) Accelerating towards human African trypanosomiasis elimination: issues and opportunities. J Vector Borne Dis. https:\/\/doi.org\/10.4103\/0972-9062.310860","journal-title":"J Vector Borne Dis"},{"issue":"4","key":"1388_CR16","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pntd.0012111","volume":"18","author":"JR Franco","year":"2024","unstructured":"Franco JR et al (2024) The elimination of human African trypanosomiasis: monitoring progress towards the 2021\u20132030 WHO road map targets. PLoS Negl Trop Dis 18(4):1\u201322. https:\/\/doi.org\/10.1371\/journal.pntd.0012111","journal-title":"PLoS Negl Trop Dis"},{"issue":"8","key":"1388_CR17","doi-asserted-by":"publisher","first-page":"448","DOI":"10.1111\/J.1365-3024.2011.01286.X","volume":"33","author":"LJ Morrison","year":"2011","unstructured":"Morrison LJ (2011) Parasite-driven pathogenesis in Trypanosoma brucei infections. Parasite Immunol 33(8):448. https:\/\/doi.org\/10.1111\/J.1365-3024.2011.01286.X","journal-title":"Parasite Immunol"},{"key":"1388_CR18","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3389\/fcimb.2021.669079","volume":"11","author":"AL de Castro Neto","year":"2021","unstructured":"de Castro Neto AL, da Silveira JF, Mortara RA (2021) Comparative analysis of virulence mechanisms of trypanosomatids pathogenic to humans. Front Cell Infect Microbiol 11:1\u201310. https:\/\/doi.org\/10.3389\/fcimb.2021.669079","journal-title":"Front Cell Infect Microbiol"},{"issue":"7","key":"1388_CR19","doi-asserted-by":"publisher","first-page":"322","DOI":"10.1016\/S0966-842X(03)00151-3","volume":"11","author":"EC Agbo","year":"2003","unstructured":"Agbo EC, Majiwa PAO, B\u00fcscher P, Claassen E, Te Pas MFW (2003) Trypanosoma brucei genomics and the challenge of identifying drug and vaccine targets. Trends Microbiol 11(7):322\u2013329. https:\/\/doi.org\/10.1016\/S0966-842X(03)00151-3","journal-title":"Trends Microbiol"},{"key":"1388_CR20","doi-asserted-by":"publisher","first-page":"162","DOI":"10.1016\/j.mib.2014.06.007","volume":"20","author":"F Achcar","year":"2014","unstructured":"Achcar F, Kerkhoven EJ, Barrett MP (2014) Trypanosoma brucei: meet the system. Curr Opin Microbiol 20:162\u2013169. https:\/\/doi.org\/10.1016\/j.mib.2014.06.007","journal-title":"Curr Opin Microbiol"},{"key":"1388_CR21","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2019.00039","author":"PGE Kennedy","year":"2019","unstructured":"Kennedy PGE, Rodgers J (2019) Clinical and neuropathogenetic aspects of human African trypanosomiasis. Front Immunol. https:\/\/doi.org\/10.3389\/fimmu.2019.00039","journal-title":"Front Immunol"},{"issue":"9","key":"1388_CR22","doi-asserted-by":"publisher","first-page":"743","DOI":"10.1016\/j.bbagrm.2014.05.028","volume":"1839","author":"JP Maree","year":"2014","unstructured":"Maree JP, Patterton HG (2014) The epigenome of Trypanosoma brucei: a regulatory interface to an unconventional transcriptional machine. Biochim Biophys Acta Gene Regul Mech 1839(9):743\u2013750. https:\/\/doi.org\/10.1016\/j.bbagrm.2014.05.028","journal-title":"Biochim Biophys Acta Gene Regul Mech"},{"issue":"6","key":"1388_CR23","doi-asserted-by":"publisher","first-page":"626","DOI":"10.1016\/J.RESMIC.2011.01.014","volume":"162","author":"K Ersfeld","year":"2011","unstructured":"Ersfeld K (2011) Nuclear architecture, genome and chromatin organisation in Trypanosoma brucei. Res Microbiol 162(6):626\u2013636. https:\/\/doi.org\/10.1016\/J.RESMIC.2011.01.014","journal-title":"Res Microbiol"},{"issue":"9","key":"1388_CR24","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.ppat.1005784","volume":"12","author":"MR Mugnier","year":"2016","unstructured":"Mugnier MR, Stebbins CE, Papavasiliou FN (2016) Masters of disguise: antigenic variation and the VSG coat in Trypanosoma brucei. PLoS Pathog 12(9):1\u20136. https:\/\/doi.org\/10.1371\/journal.ppat.1005784","journal-title":"PLoS Pathog"},{"key":"1388_CR25","doi-asserted-by":"publisher","DOI":"10.1098\/rsob.190182","author":"N Sima","year":"2019","unstructured":"Sima N, McLaughlin EJ, Hutchinson S, Glover L (2019) Escaping the immune system by DNA repair and recombination in African trypanosomes. Open Biol. https:\/\/doi.org\/10.1098\/rsob.190182","journal-title":"Open Biol"},{"key":"1388_CR26","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-017-00959-w","author":"J Pinger","year":"2017","unstructured":"Pinger J, Chowdhury S, Papavasiliou FN (2017) Variant surface glycoprotein density defines an immune evasion threshold for African trypanosomes undergoing antigenic variation. Nat Commun. https:\/\/doi.org\/10.1038\/s41467-017-00959-w","journal-title":"Nat Commun"},{"key":"1388_CR27","doi-asserted-by":"publisher","DOI":"10.3390\/ijms20235843","author":"SJ Bentley","year":"2019","unstructured":"Bentley SJ, Boshoff A (2019) Trypanosoma brucei J-protein 2 functionally co-operates with the cytosolic hsp70 and Hsp70.4 proteins. Int J Mol Sci. https:\/\/doi.org\/10.3390\/ijms20235843","journal-title":"Int J Mol Sci"},{"issue":"1","key":"1388_CR28","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1007\/s12192-018-0950-x","volume":"24","author":"SJ Bentley","year":"2019","unstructured":"Bentley SJ, Jamabo M, Boshoff A (2019) The Hsp70\/J-protein machinery of the African trypanosome, Trypanosoma brucei. Cell Stress Chaperones 24(1):125\u2013148. https:\/\/doi.org\/10.1007\/s12192-018-0950-x","journal-title":"Cell Stress Chaperones"},{"key":"1388_CR29","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1042\/BST20150193","volume":"44","author":"N Lander","year":"2016","unstructured":"Lander N, Cordeiro C, Huang G, Docampo R (2016) Inorganic polyphosphate (polyP) physiology: polyphosphate and acidocalcisomes. Biochem Soc Trans 44:1\u20136. https:\/\/doi.org\/10.1042\/BST20150193","journal-title":"Biochem Soc Trans"},{"issue":"1","key":"1388_CR30","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-023-36466-4","volume":"14","author":"Z Guan","year":"2023","unstructured":"Guan Z et al (2023) The cytoplasmic synthesis and coupled membrane translocation of eukaryotic polyphosphate by signal-activated VTC complex. Nat Commun 14(1):718. https:\/\/doi.org\/10.1038\/s41467-023-36466-4","journal-title":"Nat Commun"},{"key":"1388_CR31","doi-asserted-by":"publisher","unstructured":"M. G. & T. H. Li T, Matsushima M, Timpson W, Young S, Miedema D (2017) \u4e73\u9f20\u5fc3\u808c\u63d0\u53d6 HHS Public Access Physiol. Behav. 176(10):139 148 https:\/\/doi.org\/10.1016\/j.ceb.2016.04.007.Acidocalcisomes","DOI":"10.1016\/j.ceb.2016.04.007.Acidocalcisomes"},{"key":"1388_CR32","doi-asserted-by":"publisher","DOI":"10.1002\/BIES.201800181","author":"JD Bangs","year":"2018","unstructured":"Bangs JD (2018) Evolution of antigenic variation in African trypanosomes: variant surface glycoprotein expression, structure, and function. BioEssays. https:\/\/doi.org\/10.1002\/BIES.201800181","journal-title":"BioEssays"},{"key":"1388_CR33","doi-asserted-by":"publisher","DOI":"10.1079\/PAVSNNR202015028","author":"CN Davis","year":"2020","unstructured":"Davis CN, Rock KS, Keeling MJ (2020) Human African trypanosomiasis: current status and eradication efforts. CAB Rev Perspect Agric Vet Sci Nutr Nat Resour. https:\/\/doi.org\/10.1079\/PAVSNNR202015028","journal-title":"CAB Rev. Perspect. Agric. Vet. Sci. Nutr. Nat. Resour."},{"issue":"1","key":"1388_CR34","doi-asserted-by":"publisher","DOI":"10.3390\/TROPICALMED5010014","volume":"5","author":"HP de Koning","year":"2020","unstructured":"de Koning HP (2020) The drugs of sleeping sickness: their mechanisms of action and resistance, and a brief history. Trop Med Infect Dis 5(1):14. https:\/\/doi.org\/10.3390\/TROPICALMED5010014","journal-title":"Trop Med Infect Dis"},{"key":"1388_CR35","doi-asserted-by":"publisher","DOI":"10.1016\/j.intimp.2024.112847","volume":"140","author":"MT Aleem","year":"2024","unstructured":"Aleem MT, Munir F, Shakoor A, Gao F (2024) Advancement in the development of DNA vaccines against Trypanosoma brucei and future perspective. Int Immunopharmacol 140:112847. https:\/\/doi.org\/10.1016\/j.intimp.2024.112847","journal-title":"Int Immunopharmacol"},{"issue":"3","key":"1388_CR36","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pntd.0009235","volume":"15","author":"P Solano","year":"2021","unstructured":"Solano P (2021) Need of entomological criteria to assess zero transmission of gambiense hat. PLoS Negl Trop Dis 15(3):1\u20138. https:\/\/doi.org\/10.1371\/journal.pntd.0009235","journal-title":"PLoS Negl Trop Dis"},{"key":"1388_CR37","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2022.1088130","author":"N Yang","year":"2023","unstructured":"Yang N et al (2023) Subunit vaccines for Acinetobacter baumannii. Front Immunol. https:\/\/doi.org\/10.3389\/fimmu.2022.1088130","journal-title":"Front Immunol"},{"key":"1388_CR38","doi-asserted-by":"publisher","DOI":"10.1016\/B978-0-443-18564-9.00011-4","author":"V Apostolopoulos","year":"2024","unstructured":"Apostolopoulos V, Chavda VP (2024) Subunit protein-based vaccines. Adv Vaccin Technol Infect Chronic Dis A Guid Vaccinol. https:\/\/doi.org\/10.1016\/B978-0-443-18564-9.00011-4","journal-title":"Adv. Vaccin. Technol. Infect. Chronic. Dis. A Guid. Vaccinol."},{"key":"1388_CR39","doi-asserted-by":"publisher","DOI":"10.3390\/vaccines13050524","author":"J Tang","year":"2025","unstructured":"Tang J, Al Amin M, Campian JL (2025) Past, present, and future of viral vector vaccine platforms: a comprehensive review. Vaccines (Basel). https:\/\/doi.org\/10.3390\/vaccines13050524","journal-title":"Vaccines (Basel)"},{"key":"1388_CR40","doi-asserted-by":"publisher","DOI":"10.1038\/s41541-022-00503-y","author":"T Travieso","year":"2022","unstructured":"Travieso T, Li J, Mahesh S, Mello JDFRE, Blasi M (2022) The use of viral vectors in vaccine development. NPJ Vaccines. https:\/\/doi.org\/10.1038\/s41541-022-00503-y","journal-title":"NPJ Vaccines"},{"key":"1388_CR41","doi-asserted-by":"publisher","DOI":"10.3389\/FVETS.2022.830244\/BIBTEX","volume":"9","author":"RK Ravilov","year":"2022","unstructured":"Ravilov RK et al (2022) Viral Vector Vaccines Against ASF: Problems and Prospectives. Front Vet Sci 9:830244. https:\/\/doi.org\/10.3389\/FVETS.2022.830244\/BIBTEX","journal-title":"Front Vet Sci"},{"key":"1388_CR42","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3389\/fimmu.2021.624310","volume":"12","author":"H Karauzum","year":"2021","unstructured":"Karauzum H et al (2021) IBT-V02: a multicomponent toxoid vaccine protects against primary and secondary skin infections caused by Staphylococcus aureus. Front Immunol 12:1\u201315. https:\/\/doi.org\/10.3389\/fimmu.2021.624310","journal-title":"Front Immunol"},{"key":"1388_CR43","doi-asserted-by":"publisher","DOI":"10.3390\/toxins15090563","author":"S Gupta","year":"2023","unstructured":"Gupta S, Pellett S (2023) Recent developments in vaccine design: from live vaccines to recombinant toxin vaccines. Toxins (Basel). https:\/\/doi.org\/10.3390\/toxins15090563","journal-title":"Toxins (Basel)"},{"issue":"3","key":"1388_CR44","doi-asserted-by":"publisher","DOI":"10.3390\/VACCINES11030695","volume":"11","author":"M Kozak","year":"2023","unstructured":"Kozak M, Hu J (2023) The integrated consideration of vaccine platforms, adjuvants, and delivery routes for successful vaccine development. Vaccines 11(3):695. https:\/\/doi.org\/10.3390\/VACCINES11030695","journal-title":"Vaccines"},{"issue":"2","key":"1388_CR45","doi-asserted-by":"publisher","first-page":"637","DOI":"10.1007\/s40121-021-00404-y","volume":"10","author":"E Righi","year":"2021","unstructured":"Righi E et al (2021) A review of vaccinations in adult patients with secondary immunodeficiency. Infect Dis Ther 10(2):637\u2013661. https:\/\/doi.org\/10.1007\/s40121-021-00404-y","journal-title":"Infect Dis Ther"},{"issue":"4","key":"1388_CR46","doi-asserted-by":"publisher","first-page":"334","DOI":"10.1002\/phar.2671","volume":"42","author":"NM Bemben","year":"2022","unstructured":"Bemben NM, Berg ML (2022) Efficacy of inactivated vaccines in patients treated with immunosuppressive drug therapy. Pharmacotherapy 42(4):334\u2013342. https:\/\/doi.org\/10.1002\/phar.2671","journal-title":"Pharmacotherapy"},{"issue":"2","key":"1388_CR47","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1093\/femsre\/fuad004","volume":"47","author":"SJ Goodswen","year":"2023","unstructured":"Goodswen SJ, Kennedy PJ, Ellis JT (2023) A guide to current methodology and usage of reverse vaccinology towards in silico vaccine discovery. FEMS Microbiol Rev 47(2):1\u201322. https:\/\/doi.org\/10.1093\/femsre\/fuad004","journal-title":"FEMS Microbiol Rev"},{"issue":"February","key":"1388_CR48","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3389\/fimmu.2024.1332939","volume":"15","author":"B Lu","year":"2024","unstructured":"Lu B et al (2024) The next-generation DNA vaccine platforms and delivery systems: advances, challenges and prospects. Front Immunol 15(February):1\u201324. https:\/\/doi.org\/10.3389\/fimmu.2024.1332939","journal-title":"Front Immunol"},{"issue":"11","key":"1388_CR49","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1111\/1751-7915.70053","volume":"17","author":"S Berger","year":"2024","unstructured":"Berger S, Zeyn Y, Wagner E, Bros M (2024) New insights for the development of efficient DNA vaccines. Microb Biotechnol 17(11):1\u201326. https:\/\/doi.org\/10.1111\/1751-7915.70053","journal-title":"Microb Biotechnol"},{"issue":"1","key":"1388_CR50","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s12943-021-01335-5","volume":"20","author":"L Miao","year":"2021","unstructured":"Miao L, Zhang Y, Huang L (2021) MRNA vaccine for cancer immunotherapy. Mol Cancer 20(1):1\u201323. https:\/\/doi.org\/10.1186\/s12943-021-01335-5","journal-title":"Mol Cancer"},{"key":"1388_CR51","doi-asserted-by":"publisher","DOI":"10.1016\/j.drudis.2022.103458","author":"AAA Aljabali","year":"2022","unstructured":"Aljabali AAA et al (2022) Current state of, prospects for, and obstacles to mRNA vaccine development. Drug Discov Today. https:\/\/doi.org\/10.1016\/j.drudis.2022.103458","journal-title":"Drug Discov Today"},{"key":"1388_CR52","doi-asserted-by":"publisher","DOI":"10.3390\/vaccines9040390","author":"F Kowalzik","year":"2021","unstructured":"Kowalzik F, Schreiner D, Jensen C, Teschner D, Gehring S, Zepp F (2021) mRNA-based vaccines. Vaccines. https:\/\/doi.org\/10.3390\/vaccines9040390","journal-title":"Vaccines"},{"issue":"1","key":"1388_CR53","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s12943-021-01311-z","volume":"20","author":"Y Wang","year":"2021","unstructured":"Wang Y, Zhang Z, Luo J, Han X, Wei Y, Wei X (2021) MRNA vaccine: a potential therapeutic strategy. Mol Cancer 20(1):1\u201323. https:\/\/doi.org\/10.1186\/s12943-021-01311-z","journal-title":"Mol Cancer"},{"issue":"10","key":"1388_CR54","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3390\/v15102130","volume":"15","author":"MK da Silva","year":"2023","unstructured":"da Silva MK et al (2023) Advances of reverse vaccinology for mRNA vaccine design against SARS-CoV-2: a review of methods and tools. Viruses 15(10):1\u201318. https:\/\/doi.org\/10.3390\/v15102130","journal-title":"Viruses"},{"key":"1388_CR55","doi-asserted-by":"publisher","unstructured":"The UniProt Consortium (2023) UniProt: the Universal Protein Knowledgebase in 2023. Nucleic Acids Res. Academic Oup Com 51:523\u2013531. https:\/\/doi.org\/10.1093\/nar\/gkac1052.","DOI":"10.1093\/nar\/gkac1052"},{"issue":"1","key":"1388_CR56","doi-asserted-by":"publisher","first-page":"135","DOI":"10.1002\/pro.3290","volume":"27","author":"F Sievers","year":"2018","unstructured":"Sievers F, Higgins DG (2018) Clustal omega for making accurate alignments of many protein sequences. Protein Sci 27(1):135\u2013145. https:\/\/doi.org\/10.1002\/pro.3290","journal-title":"Protein Sci"},{"issue":"5","key":"1388_CR57","doi-asserted-by":"publisher","first-page":"1229","DOI":"10.1093\/molbev\/mst012","volume":"30","author":"BG Hall","year":"2013","unstructured":"Hall BG (2013) Building phylogenetic trees from molecular data with MEGA. Mol Biol Evol 30(5):1229\u20131235. https:\/\/doi.org\/10.1093\/molbev\/mst012","journal-title":"Mol Biol Evol"},{"issue":"9","key":"1388_CR58","doi-asserted-by":"publisher","first-page":"1189","DOI":"10.1093\/bioinformatics\/btp033","volume":"25","author":"AM Waterhouse","year":"2009","unstructured":"Waterhouse AM, Procter JB, Martin DMA, Clamp M, Barton GJ (2009) Jalview version 2-a multiple sequence alignment editor and analysis workbench. Bioinformatics 25(9):1189\u20131191. https:\/\/doi.org\/10.1093\/bioinformatics\/btp033","journal-title":"Bioinformatics"},{"key":"1388_CR59","first-page":"60","volume":"2","author":"T Hall","year":"2011","unstructured":"Hall T, Biosciences I, Carlsbad C (2011) BioEdit: An important software for molecular biology. GERF Bull Biosci 2:60\u201361","journal-title":"GERF Bull Biosci"},{"issue":"D1","key":"1388_CR60","doi-asserted-by":"publisher","first-page":"D436","DOI":"10.1093\/nar\/gkae1092","volume":"53","author":"R Vita","year":"2024","unstructured":"Vita R et al (2024) The Immune Epitope Database (IEDB): 2024 update. Nucleic Acids Res 53(D1):D436\u2013D443. https:\/\/doi.org\/10.1093\/nar\/gkae1092","journal-title":"Nucleic Acids Res"},{"issue":"W1","key":"1388_CR61","doi-asserted-by":"publisher","first-page":"W526","DOI":"10.1093\/nar\/gkae407","volume":"52","author":"Z Yan","year":"2024","unstructured":"Yan Z et al (2024) Next-generation IEDB tools: a platform for epitope prediction and analysis. Nucleic Acids Res 52(W1):W526\u2013W532. https:\/\/doi.org\/10.1093\/nar\/gkae407","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"1388_CR62","doi-asserted-by":"publisher","first-page":"22","DOI":"10.2174\/1875035400801010022","volume":"3","author":"IA Doytchinova","year":"2010","unstructured":"Doytchinova IA, Flower DR (2010) Bioinformatic approach for identifying parasite and fungal candidate subunit vaccines. Open Vaccine J 3(1):22\u201326. https:\/\/doi.org\/10.2174\/1875035400801010022","journal-title":"Open Vaccine J"},{"issue":"6","key":"1388_CR63","doi-asserted-by":"publisher","first-page":"2278","DOI":"10.1007\/s00894-014-2278-5","volume":"20","author":"I Dimitrov","year":"2014","unstructured":"Dimitrov I, Bangov I, Flower DR, Doytchinova I (2014) AllerTOP v.2--a server for in silico prediction of allergens. J Mol Model 20(6):2278. https:\/\/doi.org\/10.1007\/s00894-014-2278-5","journal-title":"J Mol Model"},{"key":"1388_CR64","doi-asserted-by":"publisher","first-page":"143","DOI":"10.1007\/978-1-4939-2285-7_7","volume":"1268","author":"S Gupta","year":"2015","unstructured":"Gupta S, Kapoor P, Chaudhary K, Gautam A, Kumar R, Raghava GPS (2015) Peptide toxicity prediction. Methods Mol Biol 1268:143\u2013157. https:\/\/doi.org\/10.1007\/978-1-4939-2285-7_7","journal-title":"Methods Mol Biol"},{"issue":"Web Server issu","key":"1388_CR65","doi-asserted-by":"publisher","first-page":"W513","DOI":"10.1093\/nar\/gkn254","volume":"36","author":"Q Zhang","year":"2008","unstructured":"Zhang Q et al (2008) Immune epitope database analysis resource (IEDB-AR). Nucleic Acids Res 36(Web Server issue):W513\u2013W518. https:\/\/doi.org\/10.1093\/nar\/gkn254","journal-title":"Nucleic Acids Res"},{"key":"1388_CR66","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2105-8-238","volume":"8","author":"M Nielsen","year":"2007","unstructured":"Nielsen M, Lundegaard C, Lund O (2007) Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method. BMC Bioinformatics 8:1\u201312. https:\/\/doi.org\/10.1186\/1471-2105-8-238","journal-title":"BMC Bioinformatics"},{"key":"1388_CR67","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2024.1474346","author":"JS Yun","year":"2024","unstructured":"Yun JS et al (2024) In silico analysis for the development of multi-epitope vaccines against Mycobacterium tuberculosis. Front Immunol. https:\/\/doi.org\/10.3389\/fimmu.2024.1474346","journal-title":"Front Immunol"},{"key":"1388_CR68","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0073957","author":"S Gupta","year":"2013","unstructured":"Gupta S, Kapoor P, Chaudhary K, Gautam A, Kumar R, Raghava GPS (2013) In silico approach for predicting toxicity of peptides and proteins. PLoS ONE. https:\/\/doi.org\/10.1371\/journal.pone.0073957","journal-title":"PLoS ONE"},{"key":"1388_CR69","doi-asserted-by":"publisher","DOI":"10.1186\/1745-6150-8-30","volume":"8","author":"SK Dhanda","year":"2013","unstructured":"Dhanda SK, Vir P, Raghava GPS (2013) Designing of interferon-gamma inducing MHC class-II binders. Biol Direct 8:30. https:\/\/doi.org\/10.1186\/1745-6150-8-30","journal-title":"Biol Direct"},{"key":"1388_CR70","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/srep42851","volume":"7","author":"G Nagpal","year":"2017","unstructured":"Nagpal G et al (2017) Computer-aided designing of immunosuppressive peptides based on IL-10 inducing potential. Sci Rep 7:1\u201310. https:\/\/doi.org\/10.1038\/srep42851","journal-title":"Sci Rep"},{"key":"1388_CR71","first-page":"659","volume":"186","author":"G Sanchez","year":"2013","unstructured":"Sanchez G (2013) Las instituciones de ciencia y tecnolog\u00eda en los procesos de aprendizaje de la producci\u00f3n agroalimentaria en Argentina. El Sist. argentino innovaci\u00f3n Inst. Empres. y redes El desaf\u00edo la creaci\u00f3n y apropiaci\u00f3n Conoc. 186:659\u2013664","journal-title":"El Sist. argentino innovaci\u00f3n Inst. Empres. y redes El desaf\u00edo la creaci\u00f3n y apropiaci\u00f3n Conoc."},{"issue":"1","key":"1388_CR72","doi-asserted-by":"publisher","first-page":"40","DOI":"10.1002\/prot.21078","volume":"65","author":"S Saha","year":"2006","unstructured":"Saha S, Raghava GPS (2006) Prediction of continuous B-cell epitopes in an antigen using recurrent neural network. Proteins Struct Funct Genet 65(1):40\u201348. https:\/\/doi.org\/10.1002\/prot.21078","journal-title":"Proteins Struct Funct Genet"},{"key":"1388_CR73","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2105-7-153","volume":"7","author":"HH Bui","year":"2006","unstructured":"Bui HH, Sidney J, Dinh K, Southwood S, Newman MJ, Sette A (2006) Predicting population coverage of T-cell epitope-based diagnostics and vaccines. BMC Bioinformatics 7:1\u20135. https:\/\/doi.org\/10.1186\/1471-2105-7-153","journal-title":"BMC Bioinformatics"},{"key":"1388_CR74","doi-asserted-by":"publisher","first-page":"115","DOI":"10.1007\/978-1-62703-342-8_8","volume":"993","author":"Y He","year":"2013","unstructured":"He Y, Xiang Z (2013) Databases and in silico tools for vaccine design. Methods Mol Biol 993:115\u2013127. https:\/\/doi.org\/10.1007\/978-1-62703-342-8_8","journal-title":"Methods Mol Biol"},{"key":"1388_CR75","doi-asserted-by":"publisher","DOI":"10.1038\/S41598-024-57793-6","author":"J Shi","year":"2024","unstructured":"Shi J et al (2024) In silico designed novel multi-epitope mRNA vaccines against Brucella by targeting extracellular protein BtuB and LptD. Sci Rep. https:\/\/doi.org\/10.1038\/S41598-024-57793-6","journal-title":"Sci Rep"},{"issue":"1","key":"1388_CR76","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41598-024-56554-9","volume":"14","author":"TL Nguyen","year":"2024","unstructured":"Nguyen TL, Kim H (2024) Immunoinformatics and computational approaches driven designing a novel vaccine candidate against Powassan virus. Sci Rep 14(1):1\u201316. https:\/\/doi.org\/10.1038\/s41598-024-56554-9","journal-title":"Sci Rep"},{"issue":"1","key":"1388_CR77","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41598-024-68947-x","volume":"14","author":"A Jebali","year":"2024","unstructured":"Jebali A, Esmaeilzadeh A, Esmaeilzadeh MK, Shabani S (2024) Immunoinformatics design and synthesis of a multi-epitope vaccine against Helicobacter pylori based on lipid nanoparticles. Sci Rep 14(1):1\u20137. https:\/\/doi.org\/10.1038\/s41598-024-68947-x","journal-title":"Sci Rep"},{"issue":"12","key":"1388_CR78","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0302120","volume":"19","author":"A Sarker","year":"2024","unstructured":"Sarker A et al (2024) In silico design of a multi-epitope vaccine for Human Parechovirus: integrating immunoinformatics and computational techniques. PLoS ONE 19(12):1\u201325. https:\/\/doi.org\/10.1371\/journal.pone.0302120","journal-title":"PLoS ONE"},{"issue":"13","key":"1388_CR79","doi-asserted-by":"publisher","first-page":"3784","DOI":"10.1093\/nar\/gkg563","volume":"31","author":"E Gasteiger","year":"2003","unstructured":"Gasteiger E, Gattiker A, Hoogland C, Ivanyi I, Appel RD, Bairoch A (2003) ExPASy: the proteomics server for in-depth protein knowledge and analysis. Nucleic Acids Res 31(13):3784\u20133788. https:\/\/doi.org\/10.1093\/nar\/gkg563","journal-title":"Nucleic Acids Res"},{"key":"1388_CR80","doi-asserted-by":"publisher","first-page":"531","DOI":"10.1385\/1592595847","volume":"112","author":"AJ Link","year":"1998","unstructured":"Link AJ (1998) \u201c2-D Proteome Analysis Protocols\u201d, 2-D Proteome Anal. Protoc 112:531\u2013552. https:\/\/doi.org\/10.1385\/1592595847","journal-title":"Protoc"},{"issue":"4","key":"1388_CR81","doi-asserted-by":"publisher","first-page":"608","DOI":"10.1093\/bioinformatics\/18.4.608","volume":"18","author":"S Mitaku","year":"2002","unstructured":"Mitaku S, Hirokawa T, Tsuji T (2002) Amphiphilicity index of polar amino acids as an aid in the characterization of amino acid preference at membrane-water interfaces. Bioinformatics 18(4):608\u2013616. https:\/\/doi.org\/10.1093\/bioinformatics\/18.4.608","journal-title":"Bioinformatics"},{"issue":"11","key":"1388_CR82","doi-asserted-by":"publisher","first-page":"953","DOI":"10.1093\/protein\/12.11.953","volume":"12","author":"S Mitaku","year":"1999","unstructured":"Mitaku S, Hirokawa T (1999) Physicochemical factors for discriminating between soluble and membrane proteins: hydrophobicity of helical segments and protein length. Protein Eng 12(11):953\u2013957. https:\/\/doi.org\/10.1093\/protein\/12.11.953","journal-title":"Protein Eng"},{"issue":"4","key":"1388_CR83","doi-asserted-by":"publisher","first-page":"378","DOI":"10.1093\/bioinformatics\/14.4.378","volume":"14","author":"T Hirokawa","year":"1998","unstructured":"Hirokawa T, Boon-Chieng S, Mitaku S (1998) SOSUI: classification and secondary structure prediction system for membrane proteins. Bioinformatics 14(4):378\u2013379. https:\/\/doi.org\/10.1093\/bioinformatics\/14.4.378","journal-title":"Bioinformatics"},{"issue":"17","key":"1388_CR84","doi-asserted-by":"publisher","first-page":"2200","DOI":"10.1093\/bioinformatics\/btp386","volume":"25","author":"CN Magnan","year":"2009","unstructured":"Magnan CN, Randall A, Baldi P (2009) SOLpro: accurate sequence-based prediction of protein solubility. Bioinformatics 25(17):2200\u20132207. https:\/\/doi.org\/10.1093\/bioinformatics\/btp386","journal-title":"Bioinformatics"},{"key":"1388_CR85","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-8-4","volume":"8","author":"IA Doytchinova","year":"2007","unstructured":"Doytchinova IA, Flower DR (2007) VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinformatics 8:4. https:\/\/doi.org\/10.1186\/1471-2105-8-4","journal-title":"BMC Bioinformatics"},{"key":"1388_CR86","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0305417","volume":"19","author":"L Ali","year":"2024","unstructured":"Ali L et al (2024) In silico design of multi-epitope vaccines against the hantaviruses by integrated structural vaccinology and molecular modeling approaches. PLoS ONE 19:1\u201320. https:\/\/doi.org\/10.1371\/journal.pone.0305417","journal-title":"PLoS ONE"},{"issue":"W1","key":"1388_CR87","doi-asserted-by":"publisher","first-page":"W402","DOI":"10.1093\/nar\/gkz297","volume":"47","author":"DWA Buchan","year":"2019","unstructured":"Buchan DWA, Jones DT (2019) The PSIPRED Protein Analysis Workbench: 20 years on. Nucleic Acids Res 47(W1):W402\u2013W407. https:\/\/doi.org\/10.1093\/nar\/gkz297","journal-title":"Nucleic Acids Res"},{"issue":"3","key":"1388_CR88","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1016\/s0968-0004(99)01540-6","volume":"25","author":"C Combet","year":"2000","unstructured":"Combet C, Blanchet C, Geourjon C, Del\u00e9age G (2000) NPS@: network protein sequence analysis. Trends Biochem Sci 25(3):147\u2013150. https:\/\/doi.org\/10.1016\/s0968-0004(99)01540-6","journal-title":"Trends Biochem Sci"},{"issue":"6","key":"1388_CR89","doi-asserted-by":"publisher","first-page":"681","DOI":"10.1093\/bioinformatics\/11.6.681","volume":"11","author":"C Geourjon","year":"1995","unstructured":"Geourjon C, Del\u00e9age G (1995) SOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments. Comput Appl Biosci 11(6):681\u2013684. https:\/\/doi.org\/10.1093\/bioinformatics\/11.6.681","journal-title":"Comput Appl Biosci"},{"issue":"2","key":"1388_CR90","doi-asserted-by":"publisher","first-page":"195","DOI":"10.1006\/jmbi.1999.3091","volume":"292","author":"DT Jones","year":"1999","unstructured":"Jones DT (1999) Protein secondary structure prediction based on position-specific scoring matrices. J Mol Biol 292(2):195\u2013202. https:\/\/doi.org\/10.1006\/jmbi.1999.3091","journal-title":"J Mol Biol"},{"issue":"2","key":"1388_CR91","doi-asserted-by":"publisher","first-page":"1127","DOI":"10.1007\/s10989-019-09915-2","volume":"26","author":"P Ghahremanifard","year":"2020","unstructured":"Ghahremanifard P, Afzali F, Rostami A, Nayeri Z, Bambai B, Minuchehr Z (2020) Designing a novel multi-epitope T vaccine for \u2018Targeting Protein for Xklp-2\u2019 (TPX2) in hepatocellular carcinoma based on immunoinformatics approach. Int J Pept Res Ther 26(2):1127\u20131136. https:\/\/doi.org\/10.1007\/s10989-019-09915-2","journal-title":"Int J Pept Res Ther"},{"key":"1388_CR92","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0312239","author":"AA Mahdeen","year":"2024","unstructured":"Mahdeen AA, Hossain I, Masum MHU, Islam S, Rabbi TMF (2024) Designing novel multiepitope mRNA vaccine targeting Hendra virus (HeV): an integrative approach utilizing immunoinformatics, reverse vaccinology, and molecular dynamics simulation. PLoS ONE. https:\/\/doi.org\/10.1371\/journal.pone.0312239","journal-title":"PLoS ONE"},{"issue":"1","key":"1388_CR93","doi-asserted-by":"publisher","first-page":"0","DOI":"10.1186\/1471-2105-14-346","volume":"14","author":"DB Craig","year":"2013","unstructured":"Craig DB, Dombkowski AA (2013) Disulfide by design 2.0: a web-based tool for disulfide engineering in proteins. BMC Bioinformatics 14(1):0\u20136. https:\/\/doi.org\/10.1186\/1471-2105-14-346","journal-title":"BMC Bioinformatics"},{"issue":"14","key":"1388_CR94","doi-asserted-by":"publisher","first-page":"1852","DOI":"10.1093\/bioinformatics\/btg231","volume":"19","author":"AA Dombkowski","year":"2003","unstructured":"Dombkowski AA (2003) Disulfide by design: a computational method for the rational design of disulfide bonds in proteins. Bioinformatics 19(14):1852\u20131853. https:\/\/doi.org\/10.1093\/bioinformatics\/btg231","journal-title":"Bioinformatics"},{"key":"1388_CR95","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gks493","author":"J Ko","year":"2012","unstructured":"Ko J, Park H, Heo L, Seok C (2012) GalaxyWEB server for protein structure prediction and refinement. Nucleic Acids Res. https:\/\/doi.org\/10.1093\/nar\/gks493","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"1388_CR96","doi-asserted-by":"publisher","first-page":"407","DOI":"10.1093\/nar\/gkm290","volume":"35","author":"M Wiederstein","year":"2007","unstructured":"Wiederstein M, Sippl MJ (2007) ProSA-web: Interactive web service for the recognition of errors in three-dimensional structures of proteins. Nucleic Acids Res 35(2):407\u2013410. https:\/\/doi.org\/10.1093\/nar\/gkm290","journal-title":"Nucleic Acids Res"},{"issue":"9","key":"1388_CR97","doi-asserted-by":"publisher","first-page":"1511","DOI":"10.1002\/PRO.5560020916","volume":"2","author":"C Colovos","year":"1993","unstructured":"Colovos C, Yeates TO (1993) Verification of protein structures: Patterns of nonbonded atomic interactions. Protein Sci 2(9):1511\u20131519. https:\/\/doi.org\/10.1002\/PRO.5560020916","journal-title":"Protein Sci"},{"key":"1388_CR98","doi-asserted-by":"publisher","DOI":"10.1016\/j.imu.2023.101422","volume":"44","author":"MHU Masum","year":"2024","unstructured":"Masum MHU, Ferdous J, Lokman S, Siddiki AZ (2024) Designing of a multiepitope-based chimeric vaccine against dengue virus serotype 3 (DENV-3) through next generation reverse vaccinology approaches. Informatics Med Unlocked 44:101422. https:\/\/doi.org\/10.1016\/j.imu.2023.101422","journal-title":"Informatics Med Unlocked"},{"issue":"2","key":"1388_CR99","doi-asserted-by":"publisher","first-page":"283","DOI":"10.1107\/S0021889892009944","volume":"26","author":"RA Laskowski","year":"1993","unstructured":"Laskowski RA, MacArthur MW, Moss DS, Thornton JM (1993) PROCHECK: a program to check the stereochemical quality of protein structures. J Appl Crystallogr 26(2):283\u2013291. https:\/\/doi.org\/10.1107\/S0021889892009944","journal-title":"J Appl Crystallogr"},{"key":"1388_CR100","doi-asserted-by":"publisher","unstructured":"Laskowski RA, Macarthur MW, Thornton JM (2012) Chapter 21 . 4 . PROCHECK\u202f: validation of protein-structure coordinates. https:\/\/doi.org\/10.1107\/97809553602060000882.","DOI":"10.1107\/97809553602060000882"},{"issue":"4","key":"1388_CR101","doi-asserted-by":"publisher","first-page":"345","DOI":"10.1002\/prot.340120407","volume":"12","author":"AL Morris","year":"1992","unstructured":"Morris AL, MacArthur MW, Hutchinson EG, Thornton JM (1992) Stereochemical quality of protein structure coordinates. Proteins 12(4):345\u2013364. https:\/\/doi.org\/10.1002\/prot.340120407","journal-title":"Proteins"},{"issue":"9","key":"1388_CR102","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0310398","volume":"19","author":"R Parvin","year":"2024","unstructured":"Parvin R, Masum MHU, Ferdous J, Mahdeen AA, Khan MSI (2024) Designing of a chimeric multiepitope vaccine against bancroftian lymphatic filariasis through immunoinformatics approaches. PLoS ONE 19(9):1\u201326. https:\/\/doi.org\/10.1371\/journal.pone.0310398","journal-title":"PLoS ONE"},{"key":"1388_CR103","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2105-9-514","volume":"9","author":"J Ponomarenko","year":"2008","unstructured":"Ponomarenko J et al (2008) ElliPro: a new structure-based tool for the prediction of antibody epitopes. BMC Bioinformatics 9:1\u20138. https:\/\/doi.org\/10.1186\/1471-2105-9-514","journal-title":"BMC Bioinformatics"},{"key":"1388_CR104","doi-asserted-by":"publisher","DOI":"10.1177\/11779322251331104","author":"A Barua","year":"2025","unstructured":"Barua A, Masum MHU, Mahdeen AA (2025) A reverse vaccinology and immunoinformatic approach for the designing of a novel mRNA vaccine against stomach cancer targeting the potent pathogenic proteins of Helicobacter pylori. Bioinform Biol Insights. https:\/\/doi.org\/10.1177\/11779322251331104","journal-title":"Bioinform Biol Insights"},{"issue":"5","key":"1388_CR105","doi-asserted-by":"publisher","first-page":"305","DOI":"10.1038\/s41577-020-00473-z","volume":"21","author":"IML Saur","year":"2021","unstructured":"Saur IML, Panstruga R, Schulze-Lefert P (2021) NOD-like receptor-mediated plant immunity: from structure to cell death. Nat Rev Immunol 21(5):305\u2013318. https:\/\/doi.org\/10.1038\/s41577-020-00473-z","journal-title":"Nat Rev Immunol"},{"issue":"2","key":"1388_CR106","doi-asserted-by":"publisher","first-page":"255","DOI":"10.1038\/nprot.2016.169","volume":"12","author":"D Kozakov","year":"2017","unstructured":"Kozakov D et al (2017) The ClusPro web server for protein-protein docking. Nat Protoc 12(2):255\u2013278. https:\/\/doi.org\/10.1038\/nprot.2016.169","journal-title":"Nat Protoc"},{"issue":"2","key":"1388_CR107","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1002\/wcms.1298","volume":"7","author":"S Yuan","year":"2017","unstructured":"Yuan S, Chan HCS, Hu Z (2017) Using PyMOL as a platform for computational drug design. Wiley Interdiscip Rev Comput Mol Sci 7(2):1\u201310. https:\/\/doi.org\/10.1002\/wcms.1298","journal-title":"Wiley Interdiscip Rev Comput Mol Sci"},{"issue":"1","key":"1388_CR108","doi-asserted-by":"publisher","first-page":"129","DOI":"10.1002\/PRO.3289","volume":"27","author":"RA Laskowski","year":"2018","unstructured":"Laskowski RA, Jab\u0142o\u0144ska J, Pravda L, Va\u0159ekov\u00e1 RS, Thornton JM (2018) PDBsum: structural summaries of PDB entries. Protein Sci 27(1):129\u2013134. https:\/\/doi.org\/10.1002\/PRO.3289","journal-title":"Protein Sci"},{"key":"1388_CR109","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-immunol-032712-095910","author":"JS Blum","year":"2012","unstructured":"Blum JS, Wearsch PA, Cresswell P (2012) Pathways of antigen processing. Annu Rev Immunol. https:\/\/doi.org\/10.1146\/annurev-immunol-032712-095910","journal-title":"Annu Rev Immunol"},{"issue":"5","key":"1388_CR110","doi-asserted-by":"publisher","first-page":"1829","DOI":"10.1038\/S41596-020-0312-X","volume":"15","author":"Y Yan","year":"2020","unstructured":"Yan Y, Tao H, He J, Huang SY (2020) The HDOCK server for integrated protein\u2013protein docking. Nat Protoc 15(5):1829\u20131852. https:\/\/doi.org\/10.1038\/S41596-020-0312-X","journal-title":"Nat Protoc"},{"issue":"1","key":"1388_CR111","doi-asserted-by":"publisher","first-page":"69","DOI":"10.1021\/CI100275A","volume":"51","author":"T Hou","year":"2011","unstructured":"Hou T, Wang J, Li Y, Wang W (2011) Assessing the performance of the MM\/PBSA and MM\/GBSA methods. 1. The accuracy of binding free energy calculations based on molecular dynamics simulations. J Chem Inf Model 51(1):69\u201382. https:\/\/doi.org\/10.1021\/CI100275A","journal-title":"J Chem Inf Model"},{"issue":"1","key":"1388_CR112","doi-asserted-by":"publisher","first-page":"429","DOI":"10.1146\/annurev-biophys-042910-155245","volume":"41","author":"RO Dror","year":"2012","unstructured":"Dror RO, Dirks RM, Grossman JP, Xu H, Shaw DE (2012) Biomolecular simulation: A computational microscope for molecular biology. Annu Rev Biophys 41(1):429\u2013452. https:\/\/doi.org\/10.1146\/annurev-biophys-042910-155245","journal-title":"Annu Rev Biophys"},{"key":"1388_CR113","doi-asserted-by":"publisher","DOI":"10.1016\/j.micpath.2024.106892","volume":"195","author":"NH Siddiquee","year":"2024","unstructured":"Siddiquee NH et al (2024) Cheminformatics-based analysis identified (Z)-2-(2,5-dimethoxy benzylidene)-6-(2-(4-methoxyphenyl)-2-oxoethoxy) benzofuran-3(2H)-one as an inhibitor of Marburg replication by interacting with NP. Microb Pathog 195:106892. https:\/\/doi.org\/10.1016\/j.micpath.2024.106892","journal-title":"Microb Pathog"},{"key":"1388_CR114","doi-asserted-by":"publisher","DOI":"10.1016\/j.molliq.2025.127883","author":"SK Mishra","year":"2025","unstructured":"Mishra SK, Siddiquee NH, Patel CN, Kumar N, Senathilake KS, Georrge JJ (2025) Integrated immunoinformatics and reverse vaccinology assisted novel multi-epitope vaccine against Coxsackievirus A10 investigating its whole genome encoded polyprotein. J Mol Liq. https:\/\/doi.org\/10.1016\/j.molliq.2025.127883","journal-title":"J Mol Liq"},{"key":"1388_CR115","doi-asserted-by":"publisher","DOI":"10.1155\/2018\/3502514","author":"Y Fu","year":"2018","unstructured":"Fu Y, Zhao J, Chen Z (2018) Insights into the molecular mechanisms of protein-ligand interactions by molecular docking and molecular dynamics simulation: a case of oligopeptide binding protein. Comput Math Methods Med. https:\/\/doi.org\/10.1155\/2018\/3502514","journal-title":"Comput Math Methods Med"},{"key":"1388_CR116","doi-asserted-by":"publisher","DOI":"10.1016\/j.imu.2024.101522","author":"NH Siddiquee","year":"2024","unstructured":"Siddiquee NH et al (2024) Insights into novel inhibitors intending HCMV protease a computational molecular modelling investigation for antiviral drug repurposing. Info Med Unlocked. https:\/\/doi.org\/10.1016\/j.imu.2024.101522","journal-title":"Info. Med. Unlocked."},{"issue":"SUPPL. 2","key":"1388_CR117","doi-asserted-by":"publisher","first-page":"526","DOI":"10.1093\/nar\/gki376","volume":"33","author":"A Grote","year":"2005","unstructured":"Grote A et al (2005) JCat: a novel tool to adapt codon usage of a target gene to its potential expression host. Nucleic Acids Res 33(SUPPL. 2):526\u2013531. https:\/\/doi.org\/10.1093\/nar\/gki376","journal-title":"Nucleic Acids Res"},{"key":"1388_CR118","doi-asserted-by":"publisher","DOI":"10.3390\/biology10100997","author":"S Aslam","year":"2021","unstructured":"Aslam S et al (2021) Designing a multi-epitope vaccine against Chlamydia trachomatis by employing integrated core proteomics, immuno-informatics and in silico approaches. Biology (Basel). https:\/\/doi.org\/10.3390\/biology10100997","journal-title":"Biology (Basel)"},{"key":"1388_CR119","doi-asserted-by":"publisher","DOI":"10.1186\/s12879-024-10272-9","author":"S Kumar","year":"2024","unstructured":"Kumar S, Mishra A, Kumar V, Singh T, Singh AK, Singh A (2024) Designing and comparative analysis of anti-oxidant and heat shock proteins based multi-epitopic filarial vaccines. BMC Infect Dis. https:\/\/doi.org\/10.1186\/s12879-024-10272-9","journal-title":"BMC Infect Dis"},{"key":"1388_CR120","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0009862","author":"N Rapin","year":"2010","unstructured":"Rapin N, Lund O, Bernaschi M, Castiglione F (2010) Computational immunology meets bioinformatics: The use of prediction tools for molecular binding in the simulation of the immune system. PLoS ONE. https:\/\/doi.org\/10.1371\/journal.pone.0009862","journal-title":"PLoS ONE"},{"key":"1388_CR121","doi-asserted-by":"publisher","DOI":"10.1093\/NAR\/GKI376","author":"A Grote","year":"2005","unstructured":"Grote A et al (2005) JCat: a novel tool to adapt codon usage of a target gene to its potential expression host. Nucleic Acids Res. https:\/\/doi.org\/10.1093\/NAR\/GKI376","journal-title":"Nucleic Acids Res"},{"issue":"3","key":"1388_CR122","doi-asserted-by":"publisher","first-page":"135","DOI":"10.1016\/J.NCRNA.2020.08.002","volume":"5","author":"H Haddad","year":"2020","unstructured":"Haddad H, Al-Zyoud W (2020) miRNA target prediction might explain the reduced transmission of SARS-CoV-2 in Jordan. Middle East. Non-coding RNA Res. 5(3):135\u2013143. https:\/\/doi.org\/10.1016\/J.NCRNA.2020.08.002","journal-title":"Middle East. Non-coding RNA Res."},{"issue":"Web Server issu","key":"1388_CR123","doi-asserted-by":"publisher","first-page":"70","DOI":"10.1093\/nar\/gkn188","volume":"36","author":"AR Gruber","year":"2008","unstructured":"Gruber AR, Lorenz R, Bernhart SH, Neub\u00f6ck R, Hofacker IL (2008) The Vienna RNA websuite. Nucleic Acids Res 36(Web Server issue):70\u201374. https:\/\/doi.org\/10.1093\/nar\/gkn188","journal-title":"Nucleic Acids Res"},{"issue":"7 July","key":"1388_CR124","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0275237","volume":"18","author":"H Motamedi","year":"2023","unstructured":"Motamedi H et al (2023) In silico designing and immunoinformatics analysis of a novel peptide vaccine against metallo-beta-lactamase (VIM and IMP) variants. PLoS ONE 18(7 July):1\u201325. https:\/\/doi.org\/10.1371\/journal.pone.0275237","journal-title":"PLoS ONE"},{"issue":"12","key":"1388_CR125","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0310802","volume":"19","author":"NH Siddiquee","year":"2024","unstructured":"Siddiquee NH et al (2024) Nature\u2019s defense against emerging neurodegenerative threats: dynamic simulation, PCA, DCCM identified potential plant-based antiviral lead targeting borna disease virus nucleoprotein. PLoS ONE 19(12):1\u201323. https:\/\/doi.org\/10.1371\/journal.pone.0310802","journal-title":"PLoS ONE"},{"issue":"6","key":"1388_CR126","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1371\/journal.pone.0326655","volume":"20","author":"M Hasan","year":"2025","unstructured":"Hasan M et al (2025) Computational design and cheminformatics profiling of omeprazole derivatives for enhanced proton pump inhibition of potassium-transporting ATPase alpha chain 1. PLoS ONE 20(6):1\u201328. https:\/\/doi.org\/10.1371\/journal.pone.0326655","journal-title":"PLoS ONE"},{"issue":"12","key":"1388_CR127","doi-asserted-by":"publisher","first-page":"7040","DOI":"10.1128\/IAI.72.12.7040-7044.2004","volume":"72","author":"L MacLean","year":"2004","unstructured":"MacLean L et al (2004) Severity of human African trypanosomiasis in East Africa is associated with geographic location, parasite genotype, and host inflammatory cytokine response profile. Infect Immun 72(12):7040\u20137044. https:\/\/doi.org\/10.1128\/IAI.72.12.7040-7044.2004","journal-title":"Infect Immun"},{"issue":"1","key":"1388_CR128","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3390\/vaccines8010130","volume":"8","author":"L Michel-Tod\u00f3","year":"2020","unstructured":"Michel-Tod\u00f3 L, Bigey P, Reche PA, Pinazo MJ, Gasc\u00f3n J, Alonso-Padilla J (2020) Design of an epitope-based vaccine ensemble for animal trypanosomiasis by computational methods. Vaccines (Basel) 8(1):1\u201318. https:\/\/doi.org\/10.3390\/vaccines8010130","journal-title":"Vaccines (Basel)"},{"key":"1388_CR129","doi-asserted-by":"publisher","first-page":"100173","DOI":"10.1016\/j.insi.2026.100173","volume":"2","author":"GB daseves","year":"2026","unstructured":"daseves GB, Moreira RS, Alves EL, Scheffer EK, Miletti LC (2026) Design and validation of a chimeric vaccine against Trypanosoma evansi ISG75: an in silico study Silico Res. Biomed 2:100173. https:\/\/doi.org\/10.1016\/j.insi.2026.100173","journal-title":"Biomed"},{"key":"1388_CR130","doi-asserted-by":"publisher","DOI":"10.1007\/s11686-026-01221-4","author":"V Nava-Cuamatzi","year":"2026","unstructured":"Nava-Cuamatzi V, Buendia-Corona RE, Gonz\u00e1lez-V\u00e1zquez MC, Cedillo-Ramirez ML, Carabarin-Lima A (2026) In silico design and evaluation of TcGAPDH as a vaccine against chagas disease: a reverse vaccinology approach. Acta Parasitol. https:\/\/doi.org\/10.1007\/s11686-026-01221-4","journal-title":"Acta Parasitol"},{"key":"1388_CR131","doi-asserted-by":"publisher","first-page":"5574","DOI":"10.1016\/j.csbj.2022.10.002","volume":"20","author":"AU Danazumi","year":"2022","unstructured":"Danazumi AU, Iliyasu Gital S, Idris S, Dibba LBS, Balogun EO, G\u00f3rna MW (2022) Immunoinformatic design of a putative multi-epitope vaccine candidate against Trypanosoma brucei gambiense. Comput Struct Biotechnol J 20:5574\u20135585. https:\/\/doi.org\/10.1016\/j.csbj.2022.10.002","journal-title":"Comput Struct Biotechnol J"},{"key":"1388_CR132","doi-asserted-by":"publisher","DOI":"10.1371\/JOURNAL.PONE.0305413","author":"MHU Masum","year":"2024","unstructured":"Masum MHU, Wajed S, Hossain MI, Moumi NR, Talukder A, Rahman MM (2024) An mRNA vaccine for pancreatic cancer designed by applying in silico immunoinformatics and reverse vaccinology approaches. PLoS ONE. https:\/\/doi.org\/10.1371\/JOURNAL.PONE.0305413","journal-title":"PLoS ONE"},{"key":"1388_CR133","doi-asserted-by":"publisher","first-page":"101169","DOI":"10.1016\/j.imu.2023.101169","volume":"37","author":"MM Rahman","year":"2023","unstructured":"Rahman MM, Masum MHU, Talukder A, Akter R (2023) An in silico reverse vaccinology approach to design a novel multiepitope peptide vaccine for non-small cell lung cancers. Inf. Med. Unlocked. 37:101169. https:\/\/doi.org\/10.1016\/j.imu.2023.101169","journal-title":"Inf. Med. Unlocked."},{"issue":"5","key":"1388_CR134","doi-asserted-by":"publisher","first-page":"339","DOI":"10.2174\/0929866526666190228144219","volume":"26","author":"DG Gamage","year":"2019","unstructured":"Gamage DG, Gunaratne A, Periyannan GR, Russell TG (2019) Applicability of instability index for in vitro protein stability prediction. Protein Pept Lett 26(5):339\u2013347. https:\/\/doi.org\/10.2174\/0929866526666190228144219","journal-title":"Protein Pept Lett"},{"key":"1388_CR135","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1016\/BS.APCSB.2021.01.007","volume":"126","author":"L Alaei","year":"2021","unstructured":"Alaei L, Ashengroph M, Moosavi-Movahedi AA (2021) The concept of protein folding\/unfolding and its impacts on human health. Adv Protein Chem Struct Biol 126:227\u2013278. https:\/\/doi.org\/10.1016\/BS.APCSB.2021.01.007","journal-title":"Adv Protein Chem Struct Biol"},{"key":"1388_CR136","doi-asserted-by":"publisher","first-page":"100049","DOI":"10.1016\/j.csbr.2025.100049","volume":"2","author":"AA Mahdeen","year":"2025","unstructured":"Mahdeen AA, Arpa SH, Hasan MR, Barua L, Ferdous J, Masum MHU (2025) Next-gen vaccine design: Integrating proteomics and bioinformatics for japanese encephalitis. Comput. Struct. Biotechnol. Reports. 2:100049. https:\/\/doi.org\/10.1016\/j.csbr.2025.100049","journal-title":"Comput. Struct. Biotechnol. Reports."},{"issue":"7","key":"1388_CR137","doi-asserted-by":"publisher","first-page":"889","DOI":"10.1093\/BIOINFORMATICS\/BTQ066","volume":"26","author":"J Xu","year":"2010","unstructured":"Xu J, Zhang Y (2010) How significant is a protein structure similarity with TM-score = 0.5? Bioinformatics 26(7):889\u2013895. https:\/\/doi.org\/10.1093\/BIOINFORMATICS\/BTQ066","journal-title":"Bioinformatics"},{"issue":"11","key":"1388_CR138","doi-asserted-by":"publisher","first-page":"82","DOI":"10.22159\/ajpcr.2020.v13i11.39242","volume":"13","author":"S Rao","year":"2020","unstructured":"Rao S, Sayeeda M, Prakash T, Ap P, Imran S, Ravi L (2020) Construction of computational 3D structures of protein drug targets of Mycobacterium tuberculosis. Asian J Pharm Clin Res 13(11):82\u201385. https:\/\/doi.org\/10.22159\/ajpcr.2020.v13i11.39242","journal-title":"Asian J Pharm Clin Res"},{"issue":"9","key":"1388_CR139","doi-asserted-by":"publisher","first-page":"1004","DOI":"10.3390\/BIOENGINEERING10091004\/S1","volume":"10","author":"H Mani","year":"2023","unstructured":"Mani H, Chang CC, Hsu HJ, Yang CH, Yen JH, Liou JW (2023) Comparison, Analysis, and Molecular Dynamics Simulations of Structures of a Viral Protein Modeled Using Various Computational Tools. Bioengineering 10(9):1004. https:\/\/doi.org\/10.3390\/BIOENGINEERING10091004\/S1","journal-title":"Bioengineering"},{"issue":"11","key":"1388_CR140","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3390\/ijms21114058","volume":"21","author":"LM Lagares","year":"2020","unstructured":"Lagares LM et al (2020) Homology modeling of the human p-glycoprotein (Abcb1) and insights into ligand binding through molecular docking studies. Int J Mol Sci 21(11):1\u201337. https:\/\/doi.org\/10.3390\/ijms21114058","journal-title":"Int J Mol Sci"},{"issue":"5","key":"1388_CR141","doi-asserted-by":"publisher","first-page":"449","DOI":"10.1517\/17460441.2015.1032936","volume":"10","author":"S Genheden","year":"2015","unstructured":"Genheden S, Ryde U (2015) The MM\/PBSA and MM\/GBSA methods to estimate ligand-binding affinities. Expert Opin Drug Discov 10(5):449\u2013461. https:\/\/doi.org\/10.1517\/17460441.2015.1032936","journal-title":"Expert Opin Drug Discov"},{"issue":"6","key":"1388_CR142","doi-asserted-by":"publisher","first-page":"1129","DOI":"10.1016\/j.neuron.2018.08.011","volume":"99","author":"SA Hollingsworth","year":"2018","unstructured":"Hollingsworth SA, Dror RO (2018) Molecular dynamics simulation for all. Neuron 99(6):1129\u20131143. https:\/\/doi.org\/10.1016\/j.neuron.2018.08.011","journal-title":"Neuron"},{"issue":"SUPPL. 1","key":"1388_CR143","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2105-12-S1-S34","volume":"12","author":"I Chikalov","year":"2011","unstructured":"Chikalov I, Yao P, Moshkov M, Latombe JC (2011) Learning probabilistic models of hydrogen bond stability from molecular dynamics simulation trajectories. BMC Bioinformatics 12(SUPPL. 1):1\u20136. https:\/\/doi.org\/10.1186\/1471-2105-12-S1-S34","journal-title":"BMC Bioinformatics"},{"issue":"613","key":"1388_CR144","doi-asserted-by":"publisher","first-page":"53","DOI":"10.1177\/117693430700300028","volume":"3","author":"X Xia","year":"2007","unstructured":"Xia X (2007) An improved implementation of codon adaptation index. Evol Bioinforma 3(613):53\u201358. https:\/\/doi.org\/10.1177\/117693430700300028","journal-title":"Evol Bioinforma"},{"issue":"11","key":"1388_CR145","doi-asserted-by":"publisher","first-page":"3465","DOI":"10.1007\/s11756-021-00866-y","volume":"76","author":"B Vakili","year":"2021","unstructured":"Vakili B, Bagheri A, Negahdaripour M (2021) Deep survey for designing a vaccine against SARS-CoV-2 and its new mutations. Biologia (Bratisl) 76(11):3465\u20133476. https:\/\/doi.org\/10.1007\/s11756-021-00866-y","journal-title":"Biologia (Bratisl)"}],"container-title":["Acta Parasitologica"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s11686-026-01388-w.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s11686-026-01388-w","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s11686-026-01388-w.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,7]],"date-time":"2026-09-07T19:02:12Z","timestamp":1788807732000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s11686-026-01388-w"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9,7]]},"references-count":145,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2026,10]]}},"alternative-id":["1388"],"URL":"https:\/\/doi.org\/10.1007\/s11686-026-01388-w","relation":{},"ISSN":["1230-2821","1896-1851"],"issn-type":[{"value":"1230-2821","type":"print"},{"value":"1896-1851","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,9,7]]},"assertion":[{"value":"25 July 2026","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"21 August 2026","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"7 September 2026","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The author(s) declared no potential conflicts of interest with respect to the research, authorship, and\/or publication of this article.","order":1,"name":"Ethics","label":"Conflict of interest","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"This research involves no animal model. So, this is not applicable for this.","order":2,"name":"Ethics","label":"Ethical approval","group":{"name":"EthicsHeading","label":"Declarations"}}],"article-number":"205"}}