{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,4]],"date-time":"2026-05-04T19:21:08Z","timestamp":1777922468544,"version":"3.51.4"},"reference-count":74,"publisher":"SAGE Publications","issue":"5","license":[{"start":{"date-parts":[[2022,10,1]],"date-time":"2022-10-01T00:00:00Z","timestamp":1664582400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.sagepub.com\/page\/policies\/text-and-data-mining-license"}],"content-domain":{"domain":["journals.sagepub.com"],"crossmark-restriction":true},"short-container-title":["Monoclonal Antibodies in Immunodiagnosis &amp; Immunotherapy"],"published-print":{"date-parts":[[2022,10]]},"abstract":"<jats:p>\n                    Increasing fungal infections in immunocompromised hosts are a growing concern for global public health. Along with treatments, preventive measures are required. The emergence of reverse vaccinology has opened avenues for using genomic and proteomic data from pathogens in the design of vaccines. In this work, we present a comprehensive collection of various computational tools and databases with potential to aid in vaccine development. The ongoing pandemic has directed attention toward the increasing number of mucormycosis infections in COVID-19 patients. As a case study, we developed a computational pipeline for assisting vaccine development for mucormycosis. We obtained 6 proteins from 29,447 sequences from UniProtKB as potential vaccine candidates against mucormycosis, fulfilling multiple criteria. These criteria included potential characteristics, namely adhesin properties, surface or extracellular localization, antigenicity, no similarity to any human proteins, nonallergenicity, stability\n                    <jats:italic toggle=\"yes\">in vitro<\/jats:italic>\n                    , and expression in fungal cells. These six proteins were predicted to have B cell and T cell epitopes, proinflammatory inducing peptides, and orthologs in several mucormycosis-causing species. These data could aid in vaccine development against mucormycosis for at-risk individuals.\n                  <\/jats:p>","DOI":"10.1089\/mab.2021.0039","type":"journal-article","created":{"date-parts":[[2022,8,8]],"date-time":"2022-08-08T11:14:51Z","timestamp":1659957291000},"page":"243-254","update-policy":"https:\/\/doi.org\/10.1177\/sage-journals-update-policy","source":"Crossref","is-referenced-by-count":5,"title":["Computer-Aided Tools and Resources for Fungal Pathogens: An Application of Reverse Vaccinology for Mucormycosis"],"prefix":"10.1177","volume":"41","author":[{"given":"Anasuya","family":"Bhargav","sequence":"first","affiliation":[{"name":"Informatics and Big Data, Council of Scientific and Industrial Research\u2013Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India."},{"name":"Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Firdaus","family":"Fatima","sequence":"additional","affiliation":[{"name":"Informatics and Big Data, Council of Scientific and Industrial Research\u2013Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India."},{"name":"Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pratibha","family":"Chaurasia","sequence":"additional","affiliation":[{"name":"Informatics and Big Data, Council of Scientific and Industrial Research\u2013Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India."},{"name":"Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Surabhi","family":"Seth","sequence":"additional","affiliation":[{"name":"Informatics and Big Data, Council of Scientific and Industrial Research\u2013Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India."},{"name":"Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9679-7178","authenticated-orcid":false,"given":"Srinivasan","family":"Ramachandran","sequence":"additional","affiliation":[{"name":"Informatics and Big Data, Council of Scientific and Industrial Research\u2013Institute of Genomics and Integrative Biology (CSIR-IGIB), New Delhi, India."},{"name":"Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India."}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"179","published-online":{"date-parts":[[2022,10,28]]},"reference":[{"key":"e_1_3_6_2_2","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.3004404"},{"key":"e_1_3_6_3_2","doi-asserted-by":"publisher","DOI":"10.1080\/10408410701647560"},{"key":"e_1_3_6_4_2","unstructured":"Fungal Infections [Internet]. [Cited August 31 2021]. https:\/\/www.thelancet.com\/series\/fungal-infections"},{"key":"e_1_3_6_5_2","doi-asserted-by":"publisher","DOI":"10.3390\/metabo10030106"},{"key":"e_1_3_6_6_2","doi-asserted-by":"publisher","DOI":"10.3390\/jof3040057"},{"key":"e_1_3_6_7_2","doi-asserted-by":"publisher","DOI":"10.1038\/nri1255"},{"key":"e_1_3_6_8_2","doi-asserted-by":"publisher","DOI":"10.3201\/eid2701.202896"},{"key":"e_1_3_6_9_2","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/cir868"},{"key":"e_1_3_6_10_2","unstructured":"Fungal Diseases and COVID-19 | CDC [Internet]. 2021 [cited August 31 2021]. https:\/\/www.cdc.gov\/fungal\/covid-fungal.html"},{"key":"e_1_3_6_11_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.envres.2021.111643"},{"key":"e_1_3_6_12_2","doi-asserted-by":"publisher","DOI":"10.1111\/myc.13353"},{"key":"e_1_3_6_13_2","doi-asserted-by":"publisher","DOI":"10.1086\/432579"},{"key":"e_1_3_6_14_2","unstructured":"Mucormycosis [Internet]. [Cited February 14 2022]. https:\/\/www.who.int\/india\/emergencies\/coronavirus-disease-(covid-19)\/mucormycosis"},{"key":"e_1_3_6_15_2","unstructured":"Mucormycosis in COVID-19: A Clinico-Microbiological Dilemma [Internet]. Kauvery Hospital. [Cited February 14 2022]. https:\/\/www.kauveryhospital.com\/kauverian-scientific-journal\/mucormycosis-in-covid-19-a-clinico-microbiological-dilemma"},{"key":"e_1_3_6_16_2","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.15081.1"},{"key":"e_1_3_6_17_2","doi-asserted-by":"publisher","DOI":"10.1111\/1469-0691.12466"},{"key":"e_1_3_6_18_2","doi-asserted-by":"publisher","DOI":"10.25259\/SNI_275_2021"},{"key":"e_1_3_6_19_2","doi-asserted-by":"publisher","DOI":"10.15698\/mic2020.06.718"},{"key":"e_1_3_6_20_2","doi-asserted-by":"publisher","DOI":"10.5152\/tpa.2014.2206"},{"key":"e_1_3_6_21_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-0691.2012.03971.x"},{"key":"e_1_3_6_22_2","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/cit816"},{"key":"e_1_3_6_23_2","unstructured":"CDC: COVID-19 Vaccination [Internet]. Centers for Disease Control and Prevention. 2020. [Cited February 14 2022]. https:\/\/www.cdc.gov\/coronavirus\/2019-ncov\/vaccines\/recommendations\/immuno.html"},{"key":"e_1_3_6_24_2","doi-asserted-by":"publisher","DOI":"10.1016\/S1369-5274(00)00119-3"},{"key":"e_1_3_6_25_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.drudis.2008.12.007"},{"key":"e_1_3_6_26_2","doi-asserted-by":"crossref","unstructured":"Mar\u00eda RAR Arturo CVJ Alicia JA Paulina MLG Gerardo AO: The Impact of Bioinformatics on Vaccine Design and Development [Internet]. Vaccines IntechOpen; 2017 [Cited August 31 2021]. https:\/\/www.intechopen.com\/chapters\/55711","DOI":"10.5772\/intechopen.69273"},{"key":"e_1_3_6_27_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.287.5459.1816"},{"key":"e_1_3_6_28_2","unstructured":"PubMed [Internet]. PubMed. [Cited August 31 2021]. https:\/\/pubmed.ncbi.nlm.nih.gov\/"},{"key":"e_1_3_6_29_2","unstructured":"UniProt [Internet]. [Cited August 31 2021]. https:\/\/www.uniprot.org\/"},{"key":"e_1_3_6_30_2","doi-asserted-by":"crossref","unstructured":"Charif D Lobry JR: SeqinR 1.0\u20132: A contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis. In: Bastolla U Porto M Roman HE and Vendruscolo M (eds.). Structural Approaches to Sequence Evolution: Molecules Networks Populations [Internet]. Springer Berlin Heidelberg 2007 pp. 207\u2013232. (Biological and Medical Physics Biomedical Engineering).","DOI":"10.1007\/978-3-540-35306-5_10"},{"key":"e_1_3_6_31_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-12-192"},{"key":"e_1_3_6_32_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0009695"},{"key":"e_1_3_6_33_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky320"},{"key":"e_1_3_6_34_2","doi-asserted-by":"publisher","DOI":"10.1038\/nprot.2007.131"},{"key":"e_1_3_6_35_2","unstructured":"VaxiJen [Internet]. [Cited February 14 2022]. www.ddg-pharmfac.net\/vaxijen\/VaxiJen\/VaxiJen.html"},{"key":"e_1_3_6_36_2","unstructured":"Protein BLAST: Search protein databases using a protein query [Internet]. [Cited February 14 2022]. https:\/\/blast.ncbi.nlm.nih.gov\/Blast.cgi?PAGE=Proteins"},{"key":"e_1_3_6_37_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0022-2836(05)80360-2"},{"key":"e_1_3_6_38_2","doi-asserted-by":"publisher","DOI":"10.1093\/bib\/bbaa294"},{"key":"e_1_3_6_39_2","doi-asserted-by":"publisher","DOI":"10.1155\/2016\/6760830"},{"key":"e_1_3_6_40_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkx346"},{"key":"e_1_3_6_41_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1006"},{"key":"e_1_3_6_42_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1002829"},{"key":"e_1_3_6_43_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh468"},{"key":"e_1_3_6_44_2","doi-asserted-by":"publisher","DOI":"10.1002\/cpim.12"},{"key":"e_1_3_6_45_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1305227110"},{"key":"e_1_3_6_46_2","doi-asserted-by":"publisher","DOI":"10.1007\/s00251-011-0513-0"},{"key":"e_1_3_6_47_2","doi-asserted-by":"publisher","DOI":"10.1110\/ps.0239403"},{"key":"e_1_3_6_48_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-6-132"},{"key":"e_1_3_6_49_2","doi-asserted-by":"publisher","DOI":"10.1186\/1745-7580-4-2"},{"key":"e_1_3_6_50_2","doi-asserted-by":"publisher","DOI":"10.1111\/imm.12889"},{"key":"e_1_3_6_51_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-10-296"},{"key":"e_1_3_6_52_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-8-238"},{"key":"e_1_3_6_53_2","doi-asserted-by":"publisher","DOI":"10.1038\/9858"},{"key":"e_1_3_6_54_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1000107"},{"key":"e_1_3_6_55_2","doi-asserted-by":"publisher","DOI":"10.1378\/chest.118.2.503"},{"key":"e_1_3_6_56_2","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2018.01783"},{"key":"e_1_3_6_57_2","unstructured":"ExPASy\u2014ProtParam tool [Internet]. [Cited February 14 2022]. https:\/\/web.expasy.org\/protparam\/"},{"key":"e_1_3_6_58_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr335"},{"key":"e_1_3_6_59_2","doi-asserted-by":"publisher","DOI":"10.1007\/s12038-015-9552-2"},{"key":"e_1_3_6_60_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkt1183"},{"key":"e_1_3_6_61_2","doi-asserted-by":"publisher","DOI":"10.1111\/bcp.14112"},{"key":"e_1_3_6_62_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-80899-6"},{"key":"e_1_3_6_63_2","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2017.00292"},{"key":"e_1_3_6_64_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.imbio.2012.10.013"},{"key":"e_1_3_6_65_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.riam.2020.07.002"},{"key":"e_1_3_6_66_2","doi-asserted-by":"publisher","DOI":"10.1093\/mmy\/myw146"},{"key":"e_1_3_6_67_2","doi-asserted-by":"publisher","DOI":"10.1086\/344058"},{"key":"e_1_3_6_68_2","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.00547-16"},{"key":"e_1_3_6_69_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr918"},{"key":"e_1_3_6_70_2","unstructured":"Data Set Hyphal Growth Time Series [Internet]. [Cited February 15 2022]. https:\/\/veupathdb.org\/veupathdb\/app\/record\/dataset\/DS_715d7c7d7c"},{"key":"e_1_3_6_71_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkz991"},{"key":"e_1_3_6_72_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.275.20.14882"},{"key":"e_1_3_6_73_2","doi-asserted-by":"publisher","DOI":"10.3390\/cells10113014"},{"key":"e_1_3_6_74_2","unstructured":"NovaDigm Therapeutics Inc. Phase I double-blind placebo-controlled dose escalation study to evaluate the safety tolerability and immunogenicity of NDV-3 a recombinant alum-adjuvanted vaccine for Staphylococcus aureus and Candida infections administered intramuscular to healthy adults [Internet]. clinicaltrials.gov; 2012 May [Cited February 10 2022]. Report No.: NCT01273922. https:\/\/clinicaltrials.gov\/ct2\/show\/NCT01273922"},{"key":"e_1_3_6_75_2","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.00312-20"}],"container-title":["Monoclonal Antibodies in Immunodiagnosis &amp; Immunotherapy"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.sagepub.com\/doi\/full-xml\/10.1089\/mab.2021.0039","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.1089\/mab.2021.0039","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.1089\/mab.2021.0039","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,5,1]],"date-time":"2026-05-01T20:21:35Z","timestamp":1777666895000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.sagepub.com\/doi\/full\/10.1089\/mab.2021.0039"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,10]]},"references-count":74,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2022,10]]}},"alternative-id":["10.1089\/mab.2021.0039"],"URL":"https:\/\/doi.org\/10.1089\/mab.2021.0039","relation":{},"ISSN":["2167-9436","2167-9436"],"issn-type":[{"value":"2167-9436","type":"print"},{"value":"2167-9436","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,10]]}}}