{"id":"https://openalex.org/W3109626990","doi":"https://doi.org/10.1093/bioinformatics/btaa984","title":"Casboundary: automated definition of integral Cas cassettes","display_name":"Casboundary: automated definition of integral Cas cassettes","publication_year":2020,"publication_date":"2020-11-11","ids":{"openalex":"https://openalex.org/W3109626990","doi":"https://doi.org/10.1093/bioinformatics/btaa984","mag":"3109626990"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa984","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa984","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/10/1352/38663749/btaa984.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"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/37/10/1352/38663749/btaa984.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036186422","display_name":"Victor Alexandre Padilha","orcid":"https://orcid.org/0000-0002-8060-0350"},"institutions":[{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Victor A Padilha","raw_affiliation_strings":["Institute of Mathematics and Computer Sciences, University of S\u00e3o Paulo , S\u00e3o Carlos, SP 13566-590, Brazil"],"affiliations":[{"raw_affiliation_string":"Institute of Mathematics and Computer Sciences, University of S\u00e3o Paulo , S\u00e3o Carlos, SP 13566-590, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008400965","display_name":"Omer S. Alkhnbashi","orcid":"https://orcid.org/0000-0001-8088-590X"},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Omer S Alkhnbashi","raw_affiliation_strings":["Bioinformatics Group, Department of Computer Science, University of Freiburg , 79110 Freiburg, Germany"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Group, Department of Computer Science, University of Freiburg , 79110 Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042136390","display_name":"Tran Van Dinh","orcid":"https://orcid.org/0000-0002-7357-4959"},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Van Dinh Tran","raw_affiliation_strings":["Bioinformatics Group, Department of Computer Science, University of Freiburg , 79110 Freiburg, Germany"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Group, Department of Computer Science, University of Freiburg , 79110 Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003808615","display_name":"Shiraz A. Shah","orcid":"https://orcid.org/0000-0002-4665-577X"},"institutions":[{"id":"https://openalex.org/I2802582725","display_name":"Gentofte Hospital","ror":"https://ror.org/051dzw862","country_code":"DK","type":"healthcare","lineage":["https://openalex.org/I2802582725"]},{"id":"https://openalex.org/I4210123840","display_name":"Copenhagen Prospective Studies on Asthma in Childhood","ror":"https://ror.org/034zy7551","country_code":"DK","type":"facility","lineage":["https://openalex.org/I4210123840"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Shiraz A Shah","raw_affiliation_strings":["COPSAC, Copenhagen University Hospitals Herlev and Gentofte , DK-2820 Gentofte, Denmark"],"affiliations":[{"raw_affiliation_string":"COPSAC, Copenhagen University Hospitals Herlev and Gentofte , DK-2820 Gentofte, Denmark","institution_ids":["https://openalex.org/I2802582725","https://openalex.org/I4210123840"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079499583","display_name":"Andr\u00e9 C. P. L. F. de Carvalho","orcid":"https://orcid.org/0000-0002-4765-6459"},"institutions":[{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Andr\u00e9 C P L F Carvalho","raw_affiliation_strings":["Institute of Mathematics and Computer Sciences, University of S\u00e3o Paulo , S\u00e3o Carlos, SP 13566-590, Brazil"],"affiliations":[{"raw_affiliation_string":"Institute of Mathematics and Computer Sciences, University of S\u00e3o Paulo , S\u00e3o Carlos, SP 13566-590, Brazil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017672883","display_name":"Rolf Backofen","orcid":"https://orcid.org/0000-0001-8231-3323"},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Rolf Backofen","raw_affiliation_strings":["Bioinformatics Group, Department of Computer Science, University of Freiburg , 79110 Freiburg, Germany","Signalling Research Centres BIOSS and CIBSS, University of Freiburg , 79104 Freiburg, Germany"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Group, Department of Computer Science, University of Freiburg , 79110 Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]},{"raw_affiliation_string":"Signalling Research Centres BIOSS and CIBSS, University of Freiburg , 79104 Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5008400965","https://openalex.org/A5017672883"],"corresponding_institution_ids":["https://openalex.org/I161046081"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.0032,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.7550675,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"37","issue":"10","first_page":"1352","last_page":"1359"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9998999834060669,"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/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9977999925613403,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9684000015258789,"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/computer-science","display_name":"Computer science","score":0.7068755626678467},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.627936065196991},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.6028703451156616},{"id":"https://openalex.org/keywords/crispr","display_name":"CRISPR","score":0.5890500545501709},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5142671465873718},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5080516338348389},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4739413559436798},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.43294936418533325},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.37010133266448975},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27743420004844666},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2396470606327057},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23344704508781433}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7068755626678467},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.627936065196991},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.6028703451156616},{"id":"https://openalex.org/C98108389","wikidata":"https://www.wikidata.org/wiki/Q412563","display_name":"CRISPR","level":3,"score":0.5890500545501709},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5142671465873718},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5080516338348389},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4739413559436798},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.43294936418533325},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.37010133266448975},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27743420004844666},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2396470606327057},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23344704508781433},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btaa984","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa984","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/10/1352/38663749/btaa984.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":"pmh:oai:pubmedcentral.nih.gov:8208735","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8208735","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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa984","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa984","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/10/1352/38663749/btaa984.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":[{"id":"https://openalex.org/G200089779","display_name":null,"funder_award_id":"SPP 1738","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G2437341293","display_name":null,"funder_award_id":"Project ID: 390939984","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G2486662831","display_name":null,"funder_award_id":"2013/07375-","funder_id":"https://openalex.org/F4320320997","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo"},{"id":"https://openalex.org/G2744736720","display_name":null,"funder_award_id":"13/07375-0","funder_id":"https://openalex.org/F4320320997","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo"},{"id":"https://openalex.org/G295657101","display_name":null,"funder_award_id":"2019/","funder_id":"https://openalex.org/F4320320997","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo"},{"id":"https://openalex.org/G3633743130","display_name":null,"funder_award_id":"SPP 1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G4935269520","display_name":null,"funder_award_id":"390939984","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G5106512922","display_name":null,"funder_award_id":"Deutsche Forschungsgemeinschaft (DFG","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G5189368492","display_name":null,"funder_award_id":"GRK 234","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G5245530366","display_name":null,"funder_award_id":"BA2168/11-2","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G581647953","display_name":null,"funder_award_id":"68/11-1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G5990746028","display_name":null,"funder_award_id":"2013/07375-0","funder_id":"https://openalex.org/F4320320997","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo"},{"id":"https://openalex.org/G6057495830","display_name":null,"funder_award_id":"BA2168/11-2 SPP 1738","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6612546117","display_name":null,"funder_award_id":"13/07","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6805876480","display_name":null,"funder_award_id":"BA 2168/3-3","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G7717818808","display_name":null,"funder_award_id":"BA 2168/11-1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G7942449511","display_name":null,"funder_award_id":"EXC-2189","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8872520400","display_name":null,"funder_award_id":"2019/21300-9","funder_id":"https://openalex.org/F4320320997","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320320997","display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","ror":"https://ror.org/02ddkpn78"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3109626990.pdf","grobid_xml":"https://content.openalex.org/works/W3109626990.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1532325895","https://openalex.org/W1977429572","https://openalex.org/W2029467110","https://openalex.org/W2037993016","https://openalex.org/W2046563455","https://openalex.org/W2051210555","https://openalex.org/W2053019594","https://openalex.org/W2056132907","https://openalex.org/W2111373249","https://openalex.org/W2112046950","https://openalex.org/W2133790733","https://openalex.org/W2135689945","https://openalex.org/W2141885858","https://openalex.org/W2143485490","https://openalex.org/W2149635735","https://openalex.org/W2153355254","https://openalex.org/W2153537688","https://openalex.org/W2163241233","https://openalex.org/W2168933209","https://openalex.org/W2170505850","https://openalex.org/W2173203512","https://openalex.org/W2199695484","https://openalex.org/W2513235972","https://openalex.org/W2544705402","https://openalex.org/W2557283755","https://openalex.org/W2565516711","https://openalex.org/W2587588342","https://openalex.org/W2797928483","https://openalex.org/W2803245377","https://openalex.org/W2809341917","https://openalex.org/W2963107018","https://openalex.org/W2980203672","https://openalex.org/W2995081665","https://openalex.org/W3036373230","https://openalex.org/W4210400672","https://openalex.org/W6679986112"],"related_works":["https://openalex.org/W4293199045","https://openalex.org/W2405656580","https://openalex.org/W3162049976","https://openalex.org/W2642604616","https://openalex.org/W4381712632","https://openalex.org/W3163009052","https://openalex.org/W4365936098","https://openalex.org/W3029656231","https://openalex.org/W3116547599","https://openalex.org/W2409842116"],"abstract_inverted_index":{"Abstract":[0],"Motivation":[1],"CRISPR-Cas":[2,24],"are":[3,26,224],"important":[4],"systems":[5,25],"found":[6],"in":[7,21,48,97],"most":[8,148],"archaeal":[9],"and":[10,62,125,166,184,207,217],"many":[11],"bacterial":[12],"genomes,":[13],"providing":[14],"adaptive":[15],"immunity":[16],"against":[17],"mobile":[18],"genetic":[19],"elements":[20],"prokaryotes.":[22],"The":[23,38],"encoded":[27],"by":[28,57,89,101],"a":[29,84,102,105,109,127],"set":[30,110],"of":[31,40,111,138,161,178,181,202,210],"consecutive":[32],"cas":[33,123,179,205],"genes,":[34],"here":[35],"termed":[36],"cassette.":[37],"identification":[39],"cassette":[41,78,128],"boundaries":[42,104],"is":[43,53],"key":[44],"for":[45,175,186],"finding":[46],"cassettes":[47],"CRISPR":[49,150],"research":[50],"field.":[51],"This":[52],"often":[54],"carried":[55],"out":[56],"using":[58],"Hidden":[59],"Markov":[60],"Models":[61],"manual":[63],"annotation.":[64],"In":[65,80,153],"this":[66],"article,":[67],"we":[68,82,156,170,191,198],"propose":[69],"the":[70,77,90,98,116,135,146,164,176,187,200,208],"first":[71],"method":[72,91,118,141],"able":[73],"to":[74,92],"automatically":[75],"define":[76],"boundaries.":[79],"addition,":[81],"present":[83],"Cas-type":[85],"predictive":[86,136],"model":[87],"used":[88],"assign":[93],"each":[94],"gene":[95],"located":[96],"region":[99],"defined":[100],"cassette\u2019s":[103],"Cas":[106,113],"label":[107],"from":[108,145],"pre-defined":[112],"types.":[114],"Furthermore,":[115],"proposed":[117,140],"can":[119],"detect":[120],"potentially":[121,203],"new":[122,204],"genes":[124,180,206],"decompose":[126],"into":[129],"its":[130],"modules.":[131],"Results":[132],"We":[133],"evaluate":[134],"performance":[137],"our":[139,154],"on":[142],"data":[143,223],"collected":[144],"two":[147,193],"recent":[149],"classification":[151,177],"studies.":[152],"experiments,":[155],"obtain":[157],"an":[158],"average":[159],"similarity":[160],"0.86":[162],"between":[163,213],"predicted":[165],"expected":[167],"cassettes.":[168],"Besides,":[169],"achieve":[171],"F-scores":[172],"above":[173],"0.9":[174],"known":[182],"types":[183],"0.73":[185],"unknown":[188],"ones.":[189],"Finally,":[190],"conduct":[192],"additional":[194],"study":[195],"cases,":[196],"where":[197],"investigate":[199],"occurrence":[201,209],"module":[211],"exchange":[212],"different":[214],"genomes.":[215],"Availability":[216],"implementation":[218],"https://github.com/BackofenLab/Casboundary.":[219],"Supplementary":[220,222],"information":[221],"available":[225],"at":[226],"Bioinformatics":[227],"online.":[228]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2020-12-07T00:00:00"}