{"id":"https://openalex.org/W4308372891","doi":"https://doi.org/10.1093/bioinformatics/btac721","title":"ViMRT: a text-mining tool and search engine for automated virus mutation recognition","display_name":"ViMRT: a text-mining tool and search engine for automated virus mutation recognition","publication_year":2022,"publication_date":"2022-11-04","ids":{"openalex":"https://openalex.org/W4308372891","doi":"https://doi.org/10.1093/bioinformatics/btac721","pmid":"https://pubmed.ncbi.nlm.nih.gov/36342236"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac721","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac721","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac721/48448818/btac721.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac721/48448818/btac721.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042205353","display_name":"Yuantao Tong","orcid":"https://orcid.org/0000-0003-4929-7450"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuantao Tong","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046221100","display_name":"Fanglin Tan","orcid":null},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Fanglin Tan","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068379834","display_name":"Honglian Huang","orcid":"https://orcid.org/0009-0003-2739-5348"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Honglian Huang","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100358742","display_name":"Zeyu Zhang","orcid":"https://orcid.org/0000-0002-8657-4915"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zeyu Zhang","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040755577","display_name":"Hui Zong","orcid":"https://orcid.org/0000-0002-9142-5017"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hui Zong","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039611299","display_name":"Yujia Xie","orcid":"https://orcid.org/0000-0003-1740-0134"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yujia Xie","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014000183","display_name":"Danqi Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Danqi Huang","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031738305","display_name":"Shiyang Cheng","orcid":"https://orcid.org/0000-0003-2344-5574"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shiyang Cheng","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078090478","display_name":"Ziyi Wei","orcid":"https://orcid.org/0009-0009-0603-9401"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ziyi Wei","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100400485","display_name":"Meng Fang","orcid":"https://orcid.org/0000-0001-6235-6545"},"institutions":[{"id":"https://openalex.org/I177933477","display_name":"Second Military Medical University","ror":"https://ror.org/04tavpn47","country_code":"CN","type":"education","lineage":["https://openalex.org/I177933477"]},{"id":"https://openalex.org/I4210137389","display_name":"Eastern Hepatobiliary Surgery Hospital","ror":"https://ror.org/043sbvg03","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210137389"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Meng Fang","raw_affiliation_strings":["Department of Laboratory Medicine, Shanghai Eastern Hepatobiliary Surgery Hospital , Shanghai 200438, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Laboratory Medicine, Shanghai Eastern Hepatobiliary Surgery Hospital , Shanghai 200438, China","institution_ids":["https://openalex.org/I177933477","https://openalex.org/I4210137389"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061647269","display_name":"M. James C. Crabbe","orcid":"https://orcid.org/0000-0003-3609-1963"},"institutions":[{"id":"https://openalex.org/I147554453","display_name":"University of Bedfordshire","ror":"https://ror.org/0400avk24","country_code":"GB","type":"education","lineage":["https://openalex.org/I147554453"]},{"id":"https://openalex.org/I181877577","display_name":"Shanxi University","ror":"https://ror.org/03y3e3s17","country_code":"CN","type":"education","lineage":["https://openalex.org/I181877577"]},{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["CN","GB"],"is_corresponding":false,"raw_author_name":"M James C Crabbe","raw_affiliation_strings":["Institute of Biomedical and Environmental Science & Technology, University of Bedfordshire , Luton LU1 3JU, UK","School of Life Sciences, Shanxi University , Taiyuan 030006, China","Wolfson College, Oxford University , Oxford OX2 6UD, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biomedical and Environmental Science & Technology, University of Bedfordshire , Luton LU1 3JU, UK","institution_ids":["https://openalex.org/I147554453"]},{"raw_affiliation_string":"School of Life Sciences, Shanxi University , Taiyuan 030006, China","institution_ids":["https://openalex.org/I181877577"]},{"raw_affiliation_string":"Wolfson College, Oxford University , Oxford OX2 6UD, UK","institution_ids":["https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100347070","display_name":"Ying Wang","orcid":"https://orcid.org/0000-0002-1819-294X"},"institutions":[{"id":"https://openalex.org/I177933477","display_name":"Second Military Medical University","ror":"https://ror.org/04tavpn47","country_code":"CN","type":"education","lineage":["https://openalex.org/I177933477"]},{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]},{"id":"https://openalex.org/I4210137389","display_name":"Eastern Hepatobiliary Surgery Hospital","ror":"https://ror.org/043sbvg03","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210137389"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Ying Wang","raw_affiliation_strings":["Department of Laboratory Medicine, Shanghai Eastern Hepatobiliary Surgery Hospital , Shanghai 200438, China","Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Laboratory Medicine, Shanghai Eastern Hepatobiliary Surgery Hospital , Shanghai 200438, China","institution_ids":["https://openalex.org/I177933477","https://openalex.org/I4210137389"]},{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049849594","display_name":"Xiaoyan Zhang","orcid":"https://orcid.org/0000-0003-1562-0045"},"institutions":[{"id":"https://openalex.org/I4210128175","display_name":"Shanghai East Hospital","ror":"https://ror.org/038xmzj21","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128175"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaoyan Zhang","raw_affiliation_strings":["Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China"],"raw_orcid":"https://orcid.org/0000-0003-1562-0045","affiliations":[{"raw_affiliation_string":"Research Center for Translational Medicine, Shanghai East Hospital, School of Life Sciences and Technology, Tongji University , Shanghai 200092, China","institution_ids":["https://openalex.org/I4210128175"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5049849594","https://openalex.org/A5100347070"],"corresponding_institution_ids":["https://openalex.org/I177933477","https://openalex.org/I4210128175","https://openalex.org/I4210137389"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.784,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.68684473,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"39","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.5789999961853027,"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"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.5789999961853027,"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/T10028","display_name":"Topic Modeling","score":0.06419999897480011,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.06340000033378601,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/mutation","display_name":"Mutation","score":0.7538106441497803},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6315330266952515},{"id":"https://openalex.org/keywords/virus","display_name":"Virus","score":0.6017137765884399},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.469168484210968},{"id":"https://openalex.org/keywords/mutation-rate","display_name":"Mutation rate","score":0.45580342411994934},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3743693232536316},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35311490297317505},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3333243131637573},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.31747668981552124},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23930907249450684},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20549124479293823}],"concepts":[{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.7538106441497803},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6315330266952515},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.6017137765884399},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.469168484210968},{"id":"https://openalex.org/C98638677","wikidata":"https://www.wikidata.org/wiki/Q2067051","display_name":"Mutation rate","level":3,"score":0.45580342411994934},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3743693232536316},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35311490297317505},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3333243131637573},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.31747668981552124},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23930907249450684},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20549124479293823}],"mesh":[{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057386","descriptor_name":"Search Engine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057386","descriptor_name":"Search Engine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057386","descriptor_name":"Search Engine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btac721","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac721","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac721/48448818/btac721.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36342236","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36342236","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:pubmedcentral.nih.gov:9805560","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9805560","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:uobrep.openrepository.com:10547/625594","is_oa":true,"landing_page_url":"http://hdl.handle.net/10547/625594","pdf_url":null,"source":{"id":"https://openalex.org/S4306400178","display_name":"University of Bedfordshire Repository (University of Bedfordshire)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I147554453","host_organization_name":"University of Bedfordshire","host_organization_lineage":["https://openalex.org/I147554453"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btac721","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac721","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac721/48448818/btac721.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G2724291185","display_name":null,"funder_award_id":"22120200014","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G3148855499","display_name":null,"funder_award_id":"2019-72","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G4272476954","display_name":null,"funder_award_id":"81972914","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5331904183","display_name":null,"funder_award_id":"81573023","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"},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4308372891.pdf","grobid_xml":"https://content.openalex.org/works/W4308372891.grobid-xml"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W1984982520","https://openalex.org/W2131285447","https://openalex.org/W2155518941","https://openalex.org/W2171374484","https://openalex.org/W2309021002","https://openalex.org/W2461540377","https://openalex.org/W2484390112","https://openalex.org/W2588444726","https://openalex.org/W2804425727","https://openalex.org/W2911489562","https://openalex.org/W2946690328","https://openalex.org/W2946804588","https://openalex.org/W2970630160","https://openalex.org/W3002151074","https://openalex.org/W3005367276","https://openalex.org/W3005400930","https://openalex.org/W3010450598","https://openalex.org/W3036040571","https://openalex.org/W3047960255","https://openalex.org/W3089639358","https://openalex.org/W3127401064","https://openalex.org/W3159485496","https://openalex.org/W3184154143","https://openalex.org/W3188329189","https://openalex.org/W3196848227","https://openalex.org/W4205170082"],"related_works":["https://openalex.org/W2146397496","https://openalex.org/W2076383445","https://openalex.org/W2136281516","https://openalex.org/W2804435636","https://openalex.org/W4281740518","https://openalex.org/W2025340064","https://openalex.org/W4384665577","https://openalex.org/W2592888218","https://openalex.org/W4231831369","https://openalex.org/W2097774084"],"abstract_inverted_index":{"MOTIVATION:":[0],"Virus":[1],"mutation":[2,57,65,88,170],"is":[3,161,203],"one":[4],"of":[5,62,112,168],"the":[6,166,172],"most":[7,48],"important":[8,34],"research":[9],"issues":[10],"which":[11],"plays":[12],"a":[13,79,106,126,162,178],"critical":[14],"role":[15],"in":[16,54,125,132,154],"disease":[17],"progression":[18],"and":[19,44,67,82,100,134,145,186,195],"has":[20,30,135],"prompted":[21],"substantial":[22],"scientific":[23],"publications.":[24],"Mutation":[25],"extraction":[26,167],"from":[27,171],"published":[28],"literature":[29],"become":[31],"an":[32],"increasingly":[33],"task,":[35],"benefiting":[36],"many":[37],"downstream":[38],"applications":[39],"such":[40],"as":[41],"vaccine":[42],"design":[43],"drug":[45],"usage.":[46],"However,":[47],"existing":[49],"approaches":[50],"have":[51],"low":[52],"performances":[53],"extracting":[55],"virus":[56,64,87,144,169,189,193],"due":[58],"to":[59,139,183],"both":[60],"lack":[61],"precise":[63],"information":[66,191],"their":[68],"development":[69,107],"based":[70,104],"on":[71,105],"human":[72,114],"gene":[73],"mutations.":[74],"RESULTS:":[75],"We":[76],"developed":[77,96],"ViMRT,":[78],"text-mining":[80],"tool":[81],"search":[83,179,188],"engine":[84,180],"for":[85,165,181],"automated":[86],"recognition":[89],"using":[90],"natural":[91],"language":[92],"processing.":[93],"ViMRT":[94,160,201],"mainly":[95],"8":[97],"optimized":[98],"rules":[99],"12":[101],"regular":[102],"expressions":[103],"dataset":[108,128],"comprising":[109],"830":[110],"papers":[111],"5":[113],"severe":[115,146],"disease-related":[116],"viruses.":[117],"It":[118],"achieved":[119],"higher":[120],"performance":[121],"than":[122],"other":[123,141],"tools":[124],"test":[127],"(1662":[129],"papers,":[130,152],"99.17%":[131],"F1-score)":[133],"been":[136],"applied":[137],"well":[138],"two":[140],"viruses,":[142],"influenza":[143],"acute":[147],"respiratory":[148],"syndrome":[149],"coronavirus-2":[150],"(212":[151],"96.99%":[153],"F1-score).":[155],"These":[156],"results":[157],"indicate":[158],"that":[159],"high-performance":[163],"method":[164],"biomedical":[173],"literature.":[174],"Besides,":[175],"we":[176],"present":[177],"researchers":[182],"quickly":[184],"find":[185],"accurately":[187],"mutation-related":[190],"including":[192],"genes":[194],"related":[196],"diseases.":[197],"AVAILABILITY":[198],"AND":[199],"IMPLEMENTATION:":[200],"software":[202],"freely":[204],"available":[205],"at":[206],"http://bmtongji.cn:1225/mutation/index.":[207]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-08-09T07:27:16.801131","created_date":"2025-10-10T00:00:00"}
