{"id":"https://openalex.org/W3013383818","doi":"https://doi.org/10.1093/bioinformatics/btaa193","title":"CRiSP: accurate structure prediction of disulfide-rich peptides with cystine-specific sequence alignment and machine learning","display_name":"CRiSP: accurate structure prediction of disulfide-rich peptides with cystine-specific sequence alignment and machine learning","publication_year":2020,"publication_date":"2020-03-22","ids":{"openalex":"https://openalex.org/W3013383818","doi":"https://doi.org/10.1093/bioinformatics/btaa193","mag":"3013383818","pmid":"https://pubmed.ncbi.nlm.nih.gov/32215567"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa193","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa193","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/11/3385/33329364/btaa193.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/36/11/3385/33329364/btaa193.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5058774457","display_name":"Haohuan Li","orcid":"https://orcid.org/0000-0003-3215-5181"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zi-Lin Liu","raw_affiliation_strings":["Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China"],"affiliations":[{"raw_affiliation_string":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041043977","display_name":"Jing-Hao Hu","orcid":null},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jing-Hao Hu","raw_affiliation_strings":["College of Chemistry and Molecular Engineering , Peking University, Beijing 100871, China","Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China"],"affiliations":[{"raw_affiliation_string":"College of Chemistry and Molecular Engineering , Peking University, Beijing 100871, China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102758554","display_name":"Fan Jiang","orcid":"https://orcid.org/0000-0001-9511-8877"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Fan Jiang","raw_affiliation_strings":["Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China","NanoAI Biotech Co. , Ltd, Shenzhen 518118, China"],"affiliations":[{"raw_affiliation_string":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"NanoAI Biotech Co. , Ltd, Shenzhen 518118, China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044562088","display_name":"Yun\u2010Dong Wu","orcid":"https://orcid.org/0000-0003-4477-7332"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210102541","display_name":"Shenzhen Bay Laboratory","ror":"https://ror.org/00sdcjz77","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210102541"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yun-Dong Wu","raw_affiliation_strings":["College of Chemistry and Molecular Engineering , Peking University, Beijing 100871, China","Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China","Shenzhen Bay Laboratory , Shenzhen 518055, China"],"affiliations":[{"raw_affiliation_string":"College of Chemistry and Molecular Engineering , Peking University, Beijing 100871, China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"Laboratory of Computational Chemistry and Drug Design , State Key Laboratory of Chemical Oncogenomics, Peking University Shenzhen Graduate School, Shenzhen 518055, China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"Shenzhen Bay Laboratory , Shenzhen 518055, China","institution_ids":["https://openalex.org/I4210102541"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5044562088","https://openalex.org/A5102758554"],"corresponding_institution_ids":["https://openalex.org/I20231570","https://openalex.org/I4210102541"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4201,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.59867878,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"36","issue":"11","first_page":"3385","last_page":"3392"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cystine","display_name":"Cystine","score":0.6409497261047363},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6196538209915161},{"id":"https://openalex.org/keywords/disulfide-bond","display_name":"Disulfide bond","score":0.6120408773422241},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5283508896827698},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5173003673553467},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.44159871339797974},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.43021631240844727},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38705572485923767},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3743186593055725},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.34157049655914307},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.24885869026184082},{"id":"https://openalex.org/keywords/cysteine","display_name":"Cysteine","score":0.1860475242137909},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1697644591331482}],"concepts":[{"id":"https://openalex.org/C2777608289","wikidata":"https://www.wikidata.org/wiki/Q408626","display_name":"Cystine","level":4,"score":0.6409497261047363},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6196538209915161},{"id":"https://openalex.org/C27256138","wikidata":"https://www.wikidata.org/wiki/Q1230226","display_name":"Disulfide bond","level":2,"score":0.6120408773422241},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5283508896827698},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5173003673553467},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.44159871339797974},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.43021631240844727},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38705572485923767},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3743186593055725},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.34157049655914307},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.24885869026184082},{"id":"https://openalex.org/C2779201268","wikidata":"https://www.wikidata.org/wiki/Q186474","display_name":"Cysteine","level":3,"score":0.1860475242137909},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1697644591331482},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003553","descriptor_name":"Cystine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003553","descriptor_name":"Cystine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003553","descriptor_name":"Cystine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004220","descriptor_name":"Disulfides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004220","descriptor_name":"Disulfides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004220","descriptor_name":"Disulfides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaa193","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa193","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/11/3385/33329364/btaa193.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32215567","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32215567","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:repository.hkust.edu.hk:1783.1-161951","is_oa":false,"landing_page_url":"http://repository.hkust.edu.hk/ir/Record/1783.1-161951","pdf_url":null,"source":{"id":"https://openalex.org/S4306401796","display_name":"Rare & Special e-Zone (The Hong Kong University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I200769079","host_organization_name":"Hong Kong University of Science and Technology","host_organization_lineage":["https://openalex.org/I200769079"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa193","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa193","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/11/3385/33329364/btaa193.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G42322103","display_name":null,"funder_award_id":"21933004","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3013383818.pdf","grobid_xml":"https://content.openalex.org/works/W3013383818.grobid-xml"},"referenced_works_count":81,"referenced_works":["https://openalex.org/W115616906","https://openalex.org/W438486696","https://openalex.org/W1576571210","https://openalex.org/W1583916311","https://openalex.org/W1678356000","https://openalex.org/W1964882699","https://openalex.org/W1971149989","https://openalex.org/W1972436355","https://openalex.org/W1975744071","https://openalex.org/W1976229976","https://openalex.org/W1976306398","https://openalex.org/W1976555399","https://openalex.org/W1979555059","https://openalex.org/W1981264193","https://openalex.org/W1989299599","https://openalex.org/W1996186559","https://openalex.org/W1999613945","https://openalex.org/W1999893599","https://openalex.org/W2006197769","https://openalex.org/W2011652502","https://openalex.org/W2011695278","https://openalex.org/W2019413738","https://openalex.org/W2021820882","https://openalex.org/W2032537132","https://openalex.org/W2033347266","https://openalex.org/W2042975711","https://openalex.org/W2044321800","https://openalex.org/W2051221071","https://openalex.org/W2055043387","https://openalex.org/W2057198053","https://openalex.org/W2065283382","https://openalex.org/W2069870183","https://openalex.org/W2072622625","https://openalex.org/W2074231493","https://openalex.org/W2075127809","https://openalex.org/W2087064593","https://openalex.org/W2103520931","https://openalex.org/W2105499052","https://openalex.org/W2108376320","https://openalex.org/W2110483430","https://openalex.org/W2114850508","https://openalex.org/W2115584760","https://openalex.org/W2119095542","https://openalex.org/W2119510132","https://openalex.org/W2124140085","https://openalex.org/W2137058861","https://openalex.org/W2137251037","https://openalex.org/W2138207315","https://openalex.org/W2143210482","https://openalex.org/W2145268834","https://openalex.org/W2145356476","https://openalex.org/W2146657148","https://openalex.org/W2148081044","https://openalex.org/W2161151688","https://openalex.org/W2166992704","https://openalex.org/W2262829055","https://openalex.org/W2317417725","https://openalex.org/W2337016332","https://openalex.org/W2491497749","https://openalex.org/W2606439133","https://openalex.org/W2751214316","https://openalex.org/W2757640349","https://openalex.org/W2766578745","https://openalex.org/W2768348081","https://openalex.org/W2770936674","https://openalex.org/W2774178591","https://openalex.org/W2802911639","https://openalex.org/W2804822363","https://openalex.org/W2807724242","https://openalex.org/W2888353590","https://openalex.org/W2910298951","https://openalex.org/W2916719694","https://openalex.org/W2944959599","https://openalex.org/W2999044305","https://openalex.org/W3199799076","https://openalex.org/W4211156111","https://openalex.org/W4211196614","https://openalex.org/W6677385034","https://openalex.org/W6745609711","https://openalex.org/W6758474642","https://openalex.org/W6808128415"],"related_works":["https://openalex.org/W2946599741","https://openalex.org/W2593264178","https://openalex.org/W2043066834","https://openalex.org/W3171039768","https://openalex.org/W2136856901","https://openalex.org/W2368468053","https://openalex.org/W2058542300","https://openalex.org/W1564749278","https://openalex.org/W2294851134","https://openalex.org/W3215498386"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}
