{"id":"https://openalex.org/W3199477560","doi":"https://doi.org/10.1093/bioinformatics/btab662","title":"Viola: a structural variant signature extractor with user-defined classifications","display_name":"Viola: a structural variant signature extractor with user-defined classifications","publication_year":2021,"publication_date":"2021-09-14","ids":{"openalex":"https://openalex.org/W3199477560","doi":"https://doi.org/10.1093/bioinformatics/btab662","mag":"3199477560","pmid":"https://pubmed.ncbi.nlm.nih.gov/34534268"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab662","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab662","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/540/42040028/btab662.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/38/2/540/42040028/btab662.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049387035","display_name":"Itsuki Sugita","orcid":null},"institutions":[{"id":"https://openalex.org/I125602781","display_name":"Tokyo Medical and Dental University","ror":"https://ror.org/051k3eh31","country_code":"JP","type":"education","lineage":["https://openalex.org/I125602781"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Itsuki Sugita","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo , Bunkyo-ku, Tokyo 1130033, Japan","Faculty of Medicine, Tokyo Medical and Dental University , Bunkyo-ku, Tokyo 1138510, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo , Bunkyo-ku, Tokyo 1130033, Japan","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Faculty of Medicine, Tokyo Medical and Dental University , Bunkyo-ku, Tokyo 1138510, Japan","institution_ids":["https://openalex.org/I125602781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016259303","display_name":"Shohei Matsuyama","orcid":null},"institutions":[{"id":"https://openalex.org/I125602781","display_name":"Tokyo Medical and Dental University","ror":"https://ror.org/051k3eh31","country_code":"JP","type":"education","lineage":["https://openalex.org/I125602781"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shohei Matsuyama","raw_affiliation_strings":["Faculty of Medicine, Tokyo Medical and Dental University , Bunkyo-ku, Tokyo 1138510, Japan"],"affiliations":[{"raw_affiliation_string":"Faculty of Medicine, Tokyo Medical and Dental University , Bunkyo-ku, Tokyo 1138510, Japan","institution_ids":["https://openalex.org/I125602781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007080843","display_name":"Hiroki Dobashi","orcid":"https://orcid.org/0000-0003-2608-927X"},"institutions":[{"id":"https://openalex.org/I125602781","display_name":"Tokyo Medical and Dental University","ror":"https://ror.org/051k3eh31","country_code":"JP","type":"education","lineage":["https://openalex.org/I125602781"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hiroki Dobashi","raw_affiliation_strings":["Faculty of Medicine, Tokyo Medical and Dental University , Bunkyo-ku, Tokyo 1138510, Japan"],"affiliations":[{"raw_affiliation_string":"Faculty of Medicine, Tokyo Medical and Dental University , Bunkyo-ku, Tokyo 1138510, Japan","institution_ids":["https://openalex.org/I125602781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056846884","display_name":"Daisuke Komura","orcid":"https://orcid.org/0000-0002-0038-728X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Daisuke Komura","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo , Bunkyo-ku, Tokyo 1130033, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo , Bunkyo-ku, Tokyo 1130033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049613195","display_name":"Shumpei Ishikawa","orcid":"https://orcid.org/0000-0003-4392-090X"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Shumpei Ishikawa","raw_affiliation_strings":["Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo , Bunkyo-ku, Tokyo 1130033, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Preventive Medicine, Graduate School of Medicine, The University of Tokyo , Bunkyo-ku, Tokyo 1130033, Japan","institution_ids":["https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5049613195","https://openalex.org/A5056846884"],"corresponding_institution_ids":["https://openalex.org/I74801974"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.9797,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.8080988,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"38","issue":"2","first_page":"540","last_page":"542"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10181","display_name":"Natural Language Processing Techniques","score":0.9972000122070312,"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"}},"topics":[{"id":"https://openalex.org/T10181","display_name":"Natural Language Processing Techniques","score":0.9972000122070312,"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/T10028","display_name":"Topic Modeling","score":0.991599977016449,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9815000295639038,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/extractor","display_name":"Extractor","score":0.749671995639801},{"id":"https://openalex.org/keywords/signature","display_name":"Signature (topology)","score":0.6925755739212036},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6528522372245789},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.49260765314102173},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.43784743547439575},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.37688982486724854},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23372584581375122},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.23133718967437744},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.0654149055480957}],"concepts":[{"id":"https://openalex.org/C117978034","wikidata":"https://www.wikidata.org/wiki/Q5422192","display_name":"Extractor","level":2,"score":0.749671995639801},{"id":"https://openalex.org/C2779696439","wikidata":"https://www.wikidata.org/wiki/Q7512811","display_name":"Signature (topology)","level":2,"score":0.6925755739212036},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6528522372245789},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.49260765314102173},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.43784743547439575},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.37688982486724854},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23372584581375122},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.23133718967437744},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0654149055480957},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C21880701","wikidata":"https://www.wikidata.org/wiki/Q2144042","display_name":"Process engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D032413","descriptor_name":"Viola","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D032413","descriptor_name":"Viola","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D032413","descriptor_name":"Viola","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab662","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab662","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/540/42040028/btab662.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:34534268","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34534268","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:8723148","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8723148","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab662","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab662","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/540/42040028/btab662.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":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3199477560.pdf","grobid_xml":"https://content.openalex.org/works/W3199477560.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W2096142777","https://openalex.org/W2109948920","https://openalex.org/W2111350087","https://openalex.org/W2116126626","https://openalex.org/W2146005104","https://openalex.org/W2235737683","https://openalex.org/W2308714960","https://openalex.org/W2344657883","https://openalex.org/W2787833500","https://openalex.org/W2797063763","https://openalex.org/W2887198695","https://openalex.org/W2951874439","https://openalex.org/W2963186762","https://openalex.org/W2997199169","https://openalex.org/W3004584205","https://openalex.org/W3014177491","https://openalex.org/W4235243453"],"related_works":["https://openalex.org/W1979583797","https://openalex.org/W3082848404","https://openalex.org/W2016864125","https://openalex.org/W2372254676","https://openalex.org/W2793679056","https://openalex.org/W3145050838","https://openalex.org/W2080135837","https://openalex.org/W1671124163","https://openalex.org/W2033914206","https://openalex.org/W2042327336"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
