{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,10]],"date-time":"2026-02-10T01:30:28Z","timestamp":1770687028543,"version":"3.49.0"},"reference-count":123,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2022,2,28]],"date-time":"2022-02-28T00:00:00Z","timestamp":1646006400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","award":["2019R1C1C1005403"],"award-info":[{"award-number":["2019R1C1C1005403"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","award":["2019R1A4A1028802"],"award-info":[{"award-number":["2019R1A4A1028802"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","award":["2021M3H9A2097520"],"award-info":[{"award-number":["2021M3H9A2097520"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,3,10]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>The development of autoimmune diseases following SARS-CoV-2 infection, including multisystem inflammatory syndrome, has been reported, and several mechanisms have been suggested, including molecular mimicry. We developed a scalable, comparative immunoinformatics pipeline called cross-reactive-epitope-search-using-structural-properties-of-proteins (CRESSP) to identify cross-reactive epitopes between a collection of SARS-CoV-2 proteomes and the human proteome using the structural properties of the proteins. Overall, by searching 4\u00a0911\u00a0245 proteins from 196\u00a0352 SARS-CoV-2 genomes, we identified 133 and 648 human proteins harboring potential cross-reactive B-cell and CD8+ T-cell epitopes, respectively. To demonstrate the robustness of our pipeline, we predicted the cross-reactive epitopes of coronavirus spike proteins, which were recognized by known cross-neutralizing antibodies. Using single-cell expression data, we identified PARP14 as a potential target of intermolecular epitope spreading between the virus and human proteins. Finally, we developed a web application (https:\/\/ahs2202.github.io\/3M\/) to interactively visualize our results. We also made our pipeline available as an open-source CRESSP package (https:\/\/pypi.org\/project\/cressp\/), which can analyze any two proteomes of interest to identify potentially cross-reactive epitopes between the proteomes. Overall, our immunoinformatic resources provide a foundation for the investigation of molecular mimicry in the pathogenesis of autoimmune and chronic inflammatory diseases following COVID-19.<\/jats:p>","DOI":"10.1093\/bib\/bbac056","type":"journal-article","created":{"date-parts":[[2022,2,3]],"date-time":"2022-02-03T20:11:02Z","timestamp":1643919062000},"source":"Crossref","is-referenced-by-count":14,"title":["CRESSP: a comprehensive pipeline for prediction of immunopathogenic SARS-CoV-2 epitopes using structural properties of proteins"],"prefix":"10.1093","volume":"23","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2539-7836","authenticated-orcid":false,"given":"Hyunsu","family":"An","sequence":"first","affiliation":[{"name":"School of Life Sciences, Gwangju Institute of Science and Technology (GIST), Republic of Korea"}]},{"given":"Minho","family":"Eun","sequence":"additional","affiliation":[{"name":"School of Life Sciences, Gwangju Institute of Science and Technology (GIST), Republic of Korea"}]},{"given":"Jawoon","family":"Yi","sequence":"additional","affiliation":[{"name":"School of Life Sciences, Gwangju Institute of Science and Technology (GIST), Republic of Korea"}]},{"given":"Jihwan","family":"Park","sequence":"additional","affiliation":[{"name":"School of Life Sciences, Gwangju Institute of Science and Technology (GIST), Republic of Korea"},{"name":"Anti-Virus Research Center, Gwangju Institute of Science and Technology (GIST), Republic of Korea"},{"name":"Laboratory for cell mechanobiology, Gwangju Institute of Science and Technology (GIST), Republic of Korea"}]}],"member":"286","published-online":{"date-parts":[[2022,2,28]]},"reference":[{"key":"2022031506401766900_ref1","doi-asserted-by":"crossref","DOI":"10.1007\/s00296-020-04701-6","article-title":"Kawasaki-like disease in children with COVID-19","volume":"40","author":"Akca","year":"2020","journal-title":"Rheumatol 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