{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,10]],"date-time":"2026-04-10T14:21:15Z","timestamp":1775830875586,"version":"3.50.1"},"reference-count":96,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2024,6,1]],"date-time":"2024-06-01T00:00:00Z","timestamp":1717200000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2024,6,1]],"date-time":"2024-06-01T00:00:00Z","timestamp":1717200000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2024,5,16]],"date-time":"2024-05-16T00:00:00Z","timestamp":1715817600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["International Immunopharmacology"],"published-print":{"date-parts":[[2024,6]]},"DOI":"10.1016\/j.intimp.2024.112242","type":"journal-article","created":{"date-parts":[[2024,5,20]],"date-time":"2024-05-20T12:06:50Z","timestamp":1716206810000},"page":"112242","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":5,"special_numbering":"C","title":["Design of a cryptococcus neoformans vaccine by subtractive proteomics combined with immunoinformatics"],"prefix":"10.1016","volume":"135","author":[{"given":"Fei","family":"Zhu","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-8619-9645","authenticated-orcid":false,"given":"Ziyou","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shiyang","family":"Ma","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yizhong","family":"Xu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Caixia","family":"Tan","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hang","family":"Yang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Peipei","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rongliu","family":"Qin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yuying","family":"Luo","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0009-0006-4275-745X","authenticated-orcid":false,"given":"Pinhua","family":"Pan","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"jie","family":"chen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"issue":"4","key":"10.1016\/j.intimp.2024.112242_b0005","doi-asserted-by":"crossref","first-page":"e1004261","DOI":"10.1371\/journal.pgen.1004261","article-title":"Analysis of the genome and transcriptome of Cryptococcus neoformans var. grubii reveals complex RNA expression and microevolution leading to virulence attenuation","volume":"10","author":"Janbon","year":"2014","journal-title":"PLoS Genet."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0010","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1111\/myc.12550","article-title":"Geographic distribution of patients affected by Cryptococcus neoformans\/Cryptococcus gattii species complexes meningitis, pigeon and tree populations in Southern Brazil","volume":"60","author":"Spina-Tensini","year":"2017","journal-title":"Mycoses"},{"key":"10.1016\/j.intimp.2024.112242_b0015","doi-asserted-by":"crossref","first-page":"17","DOI":"10.1146\/annurev-micro-020518-120210","article-title":"Life cycle of Cryptococcus neoformans","volume":"73","author":"Zhao","year":"2019","journal-title":"Annu. Rev. Microbiol."},{"key":"10.1016\/j.intimp.2024.112242_b0020","doi-asserted-by":"crossref","unstructured":"K.J. Kwon-Chung, J.E. Bennett, B.L. Wickes, W. Meyer, C.A. Cuomo, K.R. Wollenburg, T.A. Bicanic, E. Casta\u00f1eda, Y.C. Chang, J. Chen, M. Cogliati, F. Dromer, D. Ellis, S.G. Filler, M.C. Fisher, T.S. Harrison, S.M. Holland, S. Kohno, J.W. Kronstad, M. Lazera, S.M. Levitz, M.S. Lionakis, R.C. May, P. Ngamskulrongroj, P.G. Pappas, J.R. Perfect, V. Rickerts, T.C. Sorrell, T.J. Walsh, P.R. Williamson, J. Xu, A.M. Zelazny, A. Casadevall, The Case for Adopting the \u201cSpecies Complex\u201d Nomenclature for the Etiologic Agents of Cryptococcosis, mSphere 2(1) (2017).","DOI":"10.1128\/mSphere.00357-16"},{"key":"10.1016\/j.intimp.2024.112242_b0025","doi-asserted-by":"crossref","DOI":"10.3389\/fcimb.2021.683670","article-title":"Molecular markers reveal epidemiological patterns and evolutionary histories of the human pathogenic cryptococcus","volume":"11","author":"Hong","year":"2021","journal-title":"Front. Cell. Infect. Microbiol."},{"issue":"2","key":"10.1016\/j.intimp.2024.112242_b0030","doi-asserted-by":"crossref","first-page":"e1002495","DOI":"10.1371\/journal.ppat.1002495","article-title":"Population genetic analyses reveal the African origin and strain variation of Cryptococcus neoformans var. grubii","volume":"8","author":"Litvintseva","year":"2012","journal-title":"PLoS Pathog."},{"issue":"11","key":"10.1016\/j.intimp.2024.112242_b0035","doi-asserted-by":"crossref","DOI":"10.3390\/genes13112045","article-title":"Analyses of the global multilocus genotypes of the human pathogenic yeast Cryptococcus neoformans species complex","volume":"13","author":"Hitchcock","year":"2022","journal-title":"Genes (Basel)"},{"key":"10.1016\/j.intimp.2024.112242_b0040","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1016\/j.envres.2017.09.032","article-title":"Molecular characterization of Cryptococcus neoformans and Cryptococcus gattii from environmental sources and genetic comparison with clinical isolates in Apulia, Italy","volume":"160","author":"Montagna","year":"2018","journal-title":"Environ. Res."},{"issue":"6","key":"10.1016\/j.intimp.2024.112242_b0045","article-title":"Environmental Status of Cryptococcus neoformans and Cryptococcus gattii in Colombia","volume":"7","author":"Serna-Espinosa","year":"2021","journal-title":"J. Fungi (Basel)"},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0050","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1007\/s11046-018-0304-3","article-title":"Epidemiological, clinical and outcome aspects of patients with cryptococcosis caused by Cryptococcus gattii from a non-endemic area of Brazil","volume":"184","author":"Damasceno-Escoura","year":"2019","journal-title":"Mycopathologia"},{"issue":"5","key":"10.1016\/j.intimp.2024.112242_b0055","doi-asserted-by":"crossref","first-page":"305","DOI":"10.1111\/myc.12741","article-title":"Environmental distribution of Cryptococcus species and some other yeast-like fungi in India","volume":"61","author":"Prakash","year":"2018","journal-title":"Mycoses"},{"issue":"2","key":"10.1016\/j.intimp.2024.112242_b0060","doi-asserted-by":"crossref","first-page":"E74","DOI":"10.1016\/S2666-5247(23)00003-4","article-title":"WHO publish fungal priority pathogens list","volume":"4","author":"Burki","year":"2023","journal-title":"Lancet Microbe"},{"key":"10.1016\/j.intimp.2024.112242_b0065","doi-asserted-by":"crossref","first-page":"88","DOI":"10.1016\/j.mib.2017.10.012","article-title":"The cause and effect of Cryptococcus interactions with the host","volume":"40","author":"Ballou","year":"2017","journal-title":"Curr. Opin. Microbiol."},{"issue":"12","key":"10.1016\/j.intimp.2024.112242_b0070","doi-asserted-by":"crossref","first-page":"1748","DOI":"10.1016\/S1473-3099(22)00499-6","article-title":"The global burden of HIV-associated cryptococcal infection in adults in 2020: A modelling analysis","volume":"22","author":"Rajasingham","year":"2022","journal-title":"Lancet Infect. Dis."},{"key":"10.1016\/j.intimp.2024.112242_b0075","doi-asserted-by":"crossref","DOI":"10.3389\/fcimb.2021.723251","article-title":"High prevalence of HIV-related cryptococcosis and increased resistance to fluconazole of the Cryptococcus neoformans complex in Jiangxi Province, South Central China","volume":"11","author":"Yang","year":"2021","journal-title":"Front. Cell Infect. Microbiol."},{"issue":"3","key":"10.1016\/j.intimp.2024.112242_b0080","doi-asserted-by":"crossref","first-page":"524","DOI":"10.1111\/risa.13410","article-title":"Spatial quantification of the population exposed to Cryptococcus neoformans and Cryptococcus gattii species complexes in Europe: Estimating the immunocompetent and HIV\/AIDS patients under risk","volume":"40","author":"Alaniz","year":"2020","journal-title":"Risk Anal."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0085","doi-asserted-by":"crossref","first-page":"62","DOI":"10.1038\/s41572-023-00472-z","article-title":"Cryptococcal meningitis","volume":"9","author":"Tugume","year":"2023","journal-title":"Nat. Rev. Dis. Primers"},{"issue":"6","key":"10.1016\/j.intimp.2024.112242_b0090","doi-asserted-by":"crossref","first-page":"971","DOI":"10.1007\/s11046-020-00491-4","article-title":"Cryptococcus Neoformans meningitis cases among China\u2019s HIV-infected population may have been severely under-reported","volume":"185","author":"Chen","year":"2020","journal-title":"Mycopathologia"},{"issue":"9","key":"10.1016\/j.intimp.2024.112242_b0095","doi-asserted-by":"crossref","first-page":"397","DOI":"10.1016\/j.medcli.2015.11.045","article-title":"Cryptococcal meningoencephalitis. Epidemiology and mortality risk factors in pre- and post-HAART era","volume":"146","author":"Cabello \u00dabeda","year":"2016","journal-title":"Med. Clin. (Barc.)"},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0100","article-title":"Clinical profile of 24 AIDS patients with Cryptococcal Meningitis in the HAART era: A Report from an Infectious Diseases Tertiary Hospital in Western Romania","volume":"12","author":"Marincu","year":"2021","journal-title":"Diagnostics (Basel)"},{"key":"10.1016\/j.intimp.2024.112242_b0105","doi-asserted-by":"crossref","first-page":"296","DOI":"10.3389\/fcimb.2017.00296","article-title":"The metalloprotease, Mpr1, Engages AnnexinA2 to promote the transcytosis of fungal cells across the blood-brain barrier","volume":"7","author":"Na Pombejra","year":"2017","journal-title":"Front. Cell. Infect. Microbiol."},{"key":"10.1016\/j.intimp.2024.112242_b0110","doi-asserted-by":"crossref","first-page":"28","DOI":"10.1186\/s12929-016-0247-2","article-title":"CD44-mediated monocyte transmigration across Cryptococcus neoformans-infected brain microvascular endothelial cells is enhanced by HIV-1 gp41-I90 ectodomain","volume":"23","author":"He","year":"2016","journal-title":"J. Biomed. Sci."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0115","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.02183-16","article-title":"Trojan horse transit contributes to blood-brain barrier crossing of a eukaryotic pathogen","volume":"8","author":"Santiago-Tirado","year":"2017","journal-title":"MBio"},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0120","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1016\/j.micinf.2015.08.017","article-title":"Cryptococcal transmigration across a model brain blood-barrier: evidence of the Trojan horse mechanism and differences between Cryptococcus neoformans var. grubii strain H99 and Cryptococcus gattii strain R265","volume":"18","author":"Sorrell","year":"2016","journal-title":"Microbes Infect."},{"issue":"8","key":"10.1016\/j.intimp.2024.112242_b0125","doi-asserted-by":"crossref","first-page":"873","DOI":"10.1016\/S1473-3099(17)30243-8","article-title":"Global burden of disease of HIV-associated cryptococcal meningitis: An updated analysis","volume":"17","author":"Rajasingham","year":"2017","journal-title":"Lancet Infect. Dis."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0130","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1186\/s40249-023-01073-4","article-title":"Cryptococcus neoformans, a global threat to human health","volume":"12","author":"Zhao","year":"2023","journal-title":"Infect. Dis. Poverty"},{"issue":"7","key":"10.1016\/j.intimp.2024.112242_b0135","doi-asserted-by":"crossref","first-page":"2851","DOI":"10.1128\/AAC.49.7.2851-2856.2005","article-title":"Cryptococcus neoformans resistance to echinocandins: (1,3)beta-glucan synthase activity is sensitive to echinocandins","volume":"49","author":"Maligie","year":"2005","journal-title":"Antimicrob. Agents Chemother."},{"issue":"2","key":"10.1016\/j.intimp.2024.112242_b0140","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.00156-21","article-title":"Unraveling caspofungin resistance in Cryptococcus neoformans","volume":"12","author":"Papon","year":"2021","journal-title":"MBio"},{"issue":"7","key":"10.1016\/j.intimp.2024.112242_b0145","doi-asserted-by":"crossref","first-page":"2804","DOI":"10.1128\/AAC.00295-09","article-title":"Heteroresistance to fluconazole in Cryptococcus neoformans is intrinsic and associated with virulence","volume":"53","author":"Sionov","year":"2009","journal-title":"Antimicrob. Agents Chemother."},{"issue":"6","key":"10.1016\/j.intimp.2024.112242_b0150","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.01290-18","article-title":"Cryptococcus neoformans, unlike candida albicans, forms aneuploid clones directly from uninucleated cells under fluconazole stress","volume":"9","author":"Chang","year":"2018","journal-title":"MBio"},{"issue":"3","key":"10.1016\/j.intimp.2024.112242_b0155","doi-asserted-by":"crossref","first-page":"291","DOI":"10.1086\/649858","article-title":"Clinical practice guidelines for the management of Cryptococcal disease: 2010 update by the infectious diseases society of America","volume":"50","author":"Perfect","year":"2010","journal-title":"Clin. Infect. Dis."},{"issue":"12","key":"10.1016\/j.intimp.2024.112242_b0160","doi-asserted-by":"crossref","first-page":"1109","DOI":"10.1056\/NEJMoa2111904","article-title":"Single-dose liposomal Amphotericin B treatment for Cryptococcal Meningitis","volume":"386","author":"Jarvis","year":"2022","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.intimp.2024.112242_b0165","unstructured":"WHO Guidelines Approved by the Guidelines Review Committee, Guidelines for Diagnosing, Preventing and Managing Cryptococcal Disease Among Adults, Adolescents and Children Living with HIV, World Health Organization \u00a9 World Health Organization 2022., Geneva, 2022."},{"issue":"9","key":"10.1016\/j.intimp.2024.112242_b0170","doi-asserted-by":"crossref","first-page":"859","DOI":"10.1111\/myc.13486","article-title":"Antifungal drug price increases in the United States, 2000\u20132019","volume":"65","author":"Thomas","year":"2022","journal-title":"Mycoses"},{"issue":"4","key":"10.1016\/j.intimp.2024.112242_b0175","doi-asserted-by":"crossref","first-page":"e143","DOI":"10.1016\/S1473-3099(18)30493-6","article-title":"Leave no one behind: response to new evidence and guidelines for the management of cryptococcal meningitis in low-income and middle-income countries","volume":"19","author":"Loyse","year":"2019","journal-title":"Lancet Infect. Dis."},{"issue":"6390","key":"10.1016\/j.intimp.2024.112242_b0180","doi-asserted-by":"crossref","first-page":"739","DOI":"10.1126\/science.aap7999","article-title":"Worldwide emergence of resistance to antifungal drugs challenges human health and food security","volume":"360","author":"Fisher","year":"2018","journal-title":"Science"},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0185","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.03005-19","article-title":"CARD9 is required for classical macrophage activation and the induction of protective immunity against pulmonary cryptococcosis","volume":"11","author":"Campuzano","year":"2020","journal-title":"MBio"},{"issue":"5","key":"10.1016\/j.intimp.2024.112242_b0190","doi-asserted-by":"crossref","first-page":"436","DOI":"10.1016\/j.tim.2017.10.002","article-title":"A call to arms: Quest for a cryptococcal vaccine","volume":"26","author":"Caballero Van Dyke","year":"2018","journal-title":"Trends Microbiol."},{"issue":"5","key":"10.1016\/j.intimp.2024.112242_b0195","doi-asserted-by":"crossref","first-page":"447","DOI":"10.1016\/j.chom.2012.04.004","article-title":"Immunoglobulins in defense, pathogenesis, and therapy of fungal diseases","volume":"11","author":"Casadevall","year":"2012","journal-title":"Cell Host Microbe"},{"issue":"3","key":"10.1016\/j.intimp.2024.112242_b0200","doi-asserted-by":"crossref","first-page":"1453","DOI":"10.1128\/IAI.00274-06","article-title":"Protection against cryptococcosis by using a murine gamma interferon-producing Cryptococcus neoformans strain","volume":"75","author":"Wormley","year":"2007","journal-title":"Infect. Immun."},{"issue":"2","key":"10.1016\/j.intimp.2024.112242_b0205","doi-asserted-by":"crossref","first-page":"2244087","DOI":"10.1080\/22221751.2023.2244087","article-title":"Immunization with a heat-killed prm1 deletion strain protects the host from Cryptococcus neoformans infection","volume":"12","author":"Li","year":"2023","journal-title":"Emerg. Microbes Infect."},{"key":"10.1016\/j.intimp.2024.112242_b0210","doi-asserted-by":"crossref","DOI":"10.3389\/fimmu.2022.868523","article-title":"Three models of vaccination strategies against Cryptococcosis in immunocompromised hosts using heat-killed Cryptococcus neoformans \u0394sgl1","volume":"13","author":"Normile","year":"2022","journal-title":"Front. Immunol."},{"issue":"5","key":"10.1016\/j.intimp.2024.112242_b0215","doi-asserted-by":"crossref","DOI":"10.3390\/pharmaceutics15051390","article-title":"One step purification-vaccine delivery system","volume":"15","author":"Soto","year":"2023","journal-title":"Pharmaceutics"},{"key":"10.1016\/j.intimp.2024.112242_b0220","article-title":"An overview of vaccine adjuvants: Current evidence and future perspectives","volume":"10","author":"Facciol\u00e0","year":"2022","journal-title":"Vaccines (Basel)"},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0225","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1038\/s41541-021-00294-8","article-title":"Vaccines for human fungal diseases: close but still a long way to go","volume":"6","author":"Oliveira","year":"2021","journal-title":"NPJ Vaccines"},{"key":"10.1016\/j.intimp.2024.112242_b0230","first-page":"1","article-title":"A comprehensive immunoinformatic analysis of chitin deacetylase\u2019s and MP88 for designing multi-epitope vaccines against Cryptococcus neoformans","author":"Khan","year":"2023","journal-title":"J. Biomol. Struct. Dyn."},{"key":"10.1016\/j.intimp.2024.112242_b0235","doi-asserted-by":"crossref","first-page":"9921620","DOI":"10.1155\/2021\/9921620","article-title":"Epitope-based immunoinformatic approach on heat shock 70 kDa protein complex of Cryptococcus neoformans var. grubii","volume":"2021","author":"Elhassan","year":"2021","journal-title":"J. Immunol. Res."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0240","doi-asserted-by":"crossref","DOI":"10.1128\/mSphere.01281-20","article-title":"Glucan unmasking identifies regulators of temperature-induced translatome reprogramming in C. neoformans","volume":"6","author":"Bloom","year":"2021","journal-title":"mSphere"},{"issue":"D1","key":"10.1016\/j.intimp.2024.112242_b0245","doi-asserted-by":"crossref","first-page":"D20","DOI":"10.1093\/nar\/gkab1112","article-title":"Database resources of the national center for biotechnology information","volume":"50","author":"Sayers","year":"2022","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0250","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1038\/nmeth.3176","article-title":"Fast and sensitive protein alignment using DIAMOND","volume":"12","author":"Buchfink","year":"2015","journal-title":"Nat. Methods"},{"issue":"D1","key":"10.1016\/j.intimp.2024.112242_b0255","doi-asserted-by":"crossref","first-page":"D677","DOI":"10.1093\/nar\/gkaa917","article-title":"DEG 15, an update of the Database of Essential Genes that includes built-in analysis tools","volume":"49","author":"Luo","year":"2021","journal-title":"Nucleic Acids Res."},{"issue":"D1","key":"10.1016\/j.intimp.2024.112242_b0260","first-page":"D613","article-title":"PHI-base: The pathogen-host interactions database","volume":"48","author":"Urban","year":"2020","journal-title":"Nucleic Acids Res."},{"issue":"3","key":"10.1016\/j.intimp.2024.112242_b0265","doi-asserted-by":"crossref","first-page":"643","DOI":"10.1002\/prot.21018","article-title":"Prediction of protein subcellular localization","volume":"64","author":"Yu","year":"2006","journal-title":"Proteins"},{"issue":"4","key":"10.1016\/j.intimp.2024.112242_b0270","doi-asserted-by":"crossref","first-page":"e9931","DOI":"10.1371\/journal.pone.0009931","article-title":"A new method for predicting the subcellular localization of eukaryotic proteins with both single and multiple sites: Euk-mPLoc 2.0","volume":"5","author":"Chou","year":"2010","journal-title":"PLoS One"},{"key":"10.1016\/j.intimp.2024.112242_b0275","doi-asserted-by":"crossref","unstructured":"J. Hallgren, K. Tsirigos, M.D. Pedersen, J.J. Almagro Armenteros, P. Marcatili, H. Nielsen, A. Krogh, O. Winther, DeepTMHMM predicts alpha and beta transmembrane proteins using deep neural networks, bioRxiv, 2022.","DOI":"10.1101\/2022.04.08.487609"},{"issue":"7","key":"10.1016\/j.intimp.2024.112242_b0280","doi-asserted-by":"crossref","first-page":"1023","DOI":"10.1038\/s41587-021-01156-3","article-title":"SignalP 6.0 predicts all five types of signal peptides using protein language models","volume":"40","author":"Teufel","year":"2022","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.intimp.2024.112242_b0285","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.intimp.2024.112242_b0290","first-page":"531","article-title":"Protein identification and analysis tools in the ExPASy server","volume":"112","author":"Wilkins","year":"1999","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.intimp.2024.112242_b0295","doi-asserted-by":"crossref","unstructured":"UniProt: the universal protein knowledgebase, Nucleic Acids Res 45(D1) (2017) D158-d169.","DOI":"10.1093\/nar\/gkw1099"},{"key":"10.1016\/j.intimp.2024.112242_b0300","doi-asserted-by":"crossref","first-page":"424","DOI":"10.1186\/1471-2105-8-424","article-title":"Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction","volume":"8","author":"Larsen","year":"2007","journal-title":"BMC Bioinf."},{"issue":"D1","key":"10.1016\/j.intimp.2024.112242_b0305","doi-asserted-by":"crossref","first-page":"D339","DOI":"10.1093\/nar\/gky1006","article-title":"The Immune Epitope Database (IEDB): 2018 update","volume":"47","author":"Vita","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.intimp.2024.112242_b0310","doi-asserted-by":"crossref","first-page":"387","DOI":"10.1007\/978-1-60327-118-9_29","article-title":"Prediction methods for B-cell epitopes","volume":"409","author":"Saha","year":"2007","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.intimp.2024.112242_b0315","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1007\/978-1-4939-2999-3_28","article-title":"Designing B-cell epitopes for immunotherapy and subunit vaccines","volume":"1348","author":"Singh","year":"2015","journal-title":"Methods Mol. Biol."},{"issue":"6","key":"10.1016\/j.intimp.2024.112242_b0320","doi-asserted-by":"crossref","first-page":"2278","DOI":"10.1007\/s00894-014-2278-5","article-title":"AllerTOP vol 2\u2013a server for in silico prediction of allergens","volume":"20","author":"Dimitrov","year":"2014","journal-title":"J. Mol. Model."},{"key":"10.1016\/j.intimp.2024.112242_b0325","doi-asserted-by":"crossref","unstructured":"A.S. Rathore, A. Arora, S. Choudhury, P. Tijare, G. Raghava, ToxinPred 3.0: An improved method for predicting the toxicity of peptides, bioRxiv, 2023.","DOI":"10.1101\/2023.08.11.552911"},{"issue":"W1","key":"10.1016\/j.intimp.2024.112242_b0330","doi-asserted-by":"crossref","first-page":"W449","DOI":"10.1093\/nar\/gkw329","article-title":"PEP-FOLD3: Faster de novo structure prediction for linear peptides in solution and in complex","volume":"44","author":"Lamiable","year":"2016","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0335","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1093\/nar\/28.1.235","article-title":"The protein data bank","volume":"28","author":"Berman","year":"2000","journal-title":"Nucleic Acids Res."},{"issue":"6","key":"10.1016\/j.intimp.2024.112242_b0340","doi-asserted-by":"crossref","first-page":"1765","DOI":"10.1093\/bioinformatics\/btz828","article-title":"QMEANDisCo\u2014distance constraints applied on model quality estimation","volume":"36","author":"Studer","year":"2020","journal-title":"Bioinformatics"},{"key":"10.1016\/j.intimp.2024.112242_b0345","series-title":"Molecular Docking for Computer-Aided Drug Design","first-page":"463","article-title":"Chapter 22 - Docking-Based Virtual Screening Using PyRx Tool: Autophagy Target Vps34 as a Case Study","author":"Kondapuram","year":"2021"},{"issue":"10","key":"10.1016\/j.intimp.2024.112242_b0350","doi-asserted-by":"crossref","first-page":"2778","DOI":"10.1021\/ci200227u","article-title":"LigPlot+: Multiple ligand-protein interaction diagrams for drug discovery","volume":"51","author":"Laskowski","year":"2011","journal-title":"J. Chem. Inf. Model."},{"key":"10.1016\/j.intimp.2024.112242_b0355","doi-asserted-by":"crossref","first-page":"30","DOI":"10.1186\/1745-6150-8-30","article-title":"Designing of interferon-gamma inducing MHC class-II binders","volume":"8","author":"Dhanda","year":"2013","journal-title":"Biol. Direct"},{"key":"10.1016\/j.intimp.2024.112242_b0360","doi-asserted-by":"crossref","DOI":"10.1155\/2013\/263952","article-title":"Prediction of IL4 inducing peptides","volume":"2013","author":"Dhanda","year":"2013","journal-title":"Clin. Dev. Immunol."},{"key":"10.1016\/j.intimp.2024.112242_b0365","doi-asserted-by":"crossref","DOI":"10.3389\/fcimb.2021.666900","article-title":"Antimicrobial peptides human beta-defensin-2 and -3 protect the gut during Candida albicans infections enhancing the intestinal barrier integrity: In vitro study","volume":"11","author":"Fusco","year":"2021","journal-title":"Front. Cell Infect. Microbiol."},{"issue":"3","key":"10.1016\/j.intimp.2024.112242_b0370","doi-asserted-by":"crossref","first-page":"885","DOI":"10.1021\/acs.molpharmaceut.5b00802","article-title":"Intranasal vaccination against HIV-1 with adenoviral vector-based nanocomplex using synthetic TLR-4 agonist peptide as adjuvant","volume":"13","author":"Li","year":"2016","journal-title":"Mol. Pharm."},{"issue":"19","key":"10.1016\/j.intimp.2024.112242_b0375","doi-asserted-by":"crossref","first-page":"2362","DOI":"10.1016\/j.vaccine.2003.11.061","article-title":"Development of experimental carbohydrate-conjugate vaccines composed of Streptococcus pneumoniae capsular polysaccharides and the universal helper T-lymphocyte epitope (PADRE)","volume":"22","author":"Alexander","year":"2004","journal-title":"Vaccine"},{"issue":"17","key":"10.1016\/j.intimp.2024.112242_b0380","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"},{"issue":"W1","key":"10.1016\/j.intimp.2024.112242_b0385","doi-asserted-by":"crossref","first-page":"W402","DOI":"10.1093\/nar\/gkz297","article-title":"The PSIPRED protein analysis workbench: 20 years on","volume":"47","author":"Buchan","year":"2019","journal-title":"Nucleic Acids Res."},{"issue":"Web Server issue","key":"10.1016\/j.intimp.2024.112242_b0390","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."},{"issue":"W1","key":"10.1016\/j.intimp.2024.112242_b0395","doi-asserted-by":"crossref","first-page":"W406","DOI":"10.1093\/nar\/gkw336","article-title":"3Drefine: An interactive web server for efficient protein structure refinement","volume":"44","author":"Bhattacharya","year":"2016","journal-title":"Nucleic Acids Res."},{"issue":"9","key":"10.1016\/j.intimp.2024.112242_b0400","doi-asserted-by":"crossref","first-page":"1511","DOI":"10.1002\/pro.5560020916","article-title":"Verification of protein structures: patterns of nonbonded atomic interactions","volume":"2","author":"Colovos","year":"1993","journal-title":"Protein Sci."},{"issue":"4","key":"10.1016\/j.intimp.2024.112242_b0405","doi-asserted-by":"crossref","first-page":"477","DOI":"10.1007\/BF00228148","article-title":"AQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR","volume":"8","author":"Laskowski","year":"1996","journal-title":"J. Biomol. NMR"},{"issue":"Web Server issue","key":"10.1016\/j.intimp.2024.112242_b0410","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."},{"issue":"2","key":"10.1016\/j.intimp.2024.112242_b0415","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.intimp.2024.112242_b0420","doi-asserted-by":"crossref","DOI":"10.3389\/fmolb.2021.729513","article-title":"Structural biology in the clouds: The WeNMR-EOSC ecosystem","volume":"8","author":"Honorato","year":"2021","journal-title":"Front. Mol. Biosci."},{"issue":"1","key":"10.1016\/j.intimp.2024.112242_b0425","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."},{"issue":"16","key":"10.1016\/j.intimp.2024.112242_b0430","doi-asserted-by":"crossref","first-page":"1701","DOI":"10.1002\/jcc.20291","article-title":"GROMACS: Fast, flexible, and free","volume":"26","author":"Van Der Spoel","year":"2005","journal-title":"J. Comput. Chem."},{"issue":"10","key":"10.1016\/j.intimp.2024.112242_b0435","doi-asserted-by":"crossref","first-page":"6281","DOI":"10.1021\/acs.jctc.1c00645","article-title":"gmx_MMPBSA: A new tool to perform end-state free energy calculations with GROMACS","volume":"17","author":"Vald\u00e9s-Tresanco","year":"2021","journal-title":"J. Chem. Theory Comput."},{"key":"10.1016\/j.intimp.2024.112242_b0440","doi-asserted-by":"crossref","DOI":"10.3389\/fimmu.2022.998262","article-title":"In-silico evaluation of adenoviral COVID-19 vaccination protocols: Assessment of immunological memory up to 6 months after the third dose","volume":"13","author":"Stolfi","year":"2022","journal-title":"Front. Immunol."},{"issue":"Web Server issue","key":"10.1016\/j.intimp.2024.112242_b0445","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."},{"issue":"9","key":"10.1016\/j.intimp.2024.112242_b0450","doi-asserted-by":"crossref","first-page":"887","DOI":"10.1111\/myc.13491","article-title":"Comparison of features and outcomes between HIV-negative patients with Cryptococcus gattii meningitis and Cryptococcus neoformans meningitis in South China","volume":"65","author":"Su","year":"2022","journal-title":"Mycoses"},{"key":"10.1016\/j.intimp.2024.112242_b0455","article-title":"Metagenomic next-generation sequencing assists in the diagnosis of Cryptococcus pneumonia: Case series and literature review","volume":"10","author":"Wang","year":"2022","journal-title":"Front. Public Health"},{"issue":"4","key":"10.1016\/j.intimp.2024.112242_b0460","doi-asserted-by":"crossref","first-page":"278","DOI":"10.1097\/QCO.0000000000000458","article-title":"Treatment of cryptococcosis in non-HIV immunocompromised patients","volume":"31","author":"Henao-Mart\u00ednez","year":"2018","journal-title":"Curr. Opin. Infect. Dis."},{"issue":"12","key":"10.1016\/j.intimp.2024.112242_b0465","doi-asserted-by":"crossref","first-page":"5255","DOI":"10.1080\/21645515.2021.1977057","article-title":"Vaccines and vaccination: history and emerging issues","volume":"17","author":"Kayser","year":"2021","journal-title":"Hum. Vaccin. Immunother."},{"key":"10.1016\/j.intimp.2024.112242_b0470","doi-asserted-by":"crossref","first-page":"442","DOI":"10.3389\/fimmu.2020.00442","article-title":"Better epitope discovery, precision immune engineering, and accelerated vaccine design using immunoinformatics tools","volume":"11","author":"De Groot","year":"2020","journal-title":"Front. Immunol."},{"issue":"9","key":"10.1016\/j.intimp.2024.112242_b0475","doi-asserted-by":"crossref","first-page":"5209","DOI":"10.1002\/jmv.27017","article-title":"Bioinformatics and immunoinformatics to support COVID-19 vaccine development","volume":"93","author":"Ishack","year":"2021","journal-title":"J. Med. Virol."},{"key":"10.1016\/j.intimp.2024.112242_b0480","doi-asserted-by":"crossref","first-page":"1091941","DOI":"10.3389\/fimmu.2023.1091941","article-title":"Immunoinformatics design of multivalent epitope vaccine against monkeypox virus and its variants using membrane-bound, enveloped, and extracellular proteins as targets","volume":"14","author":"Waqas","year":"2023","journal-title":"Front. Immunol."}],"container-title":["International Immunopharmacology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1567576924007616?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1567576924007616?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2024,6,6]],"date-time":"2024-06-06T08:12:22Z","timestamp":1717661542000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1567576924007616"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,6]]},"references-count":96,"alternative-id":["S1567576924007616"],"URL":"https:\/\/doi.org\/10.1016\/j.intimp.2024.112242","relation":{},"ISSN":["1567-5769"],"issn-type":[{"value":"1567-5769","type":"print"}],"subject":[],"published":{"date-parts":[[2024,6]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Design of a cryptococcus neoformans vaccine by subtractive proteomics combined with immunoinformatics","name":"articletitle","label":"Article Title"},{"value":"International Immunopharmacology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.intimp.2024.112242","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2024 The Authors. Published by Elsevier B.V.","name":"copyright","label":"Copyright"}],"article-number":"112242"}}