{"id":"https://openalex.org/W2010465899","doi":"https://doi.org/10.1109/isb.2012.6314145","title":"BAsplice: Bi-direction alignment for detecting splice junctions","display_name":"BAsplice: Bi-direction alignment for detecting splice junctions","publication_year":2012,"publication_date":"2012-08-01","ids":{"openalex":"https://openalex.org/W2010465899","doi":"https://doi.org/10.1109/isb.2012.6314145","mag":"2010465899"},"language":"en","primary_location":{"id":"doi:10.1109/isb.2012.6314145","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isb.2012.6314145","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 6th International Conference on Systems Biology (ISB)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049782464","display_name":"Jingde Bu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jingde Bu","raw_affiliation_strings":["Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China#TAB#"],"affiliations":[{"raw_affiliation_string":"Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210108629","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China#TAB#","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109125441","display_name":"Jiayan Wu","orcid":"https://orcid.org/0000-0001-6048-405X"},"institutions":[{"id":"https://openalex.org/I2801577699","display_name":"Beijing Institute of Genomics","ror":"https://ror.org/049gn7z52","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I2801577699"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiayan Wu","raw_affiliation_strings":["CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China"],"affiliations":[{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]},{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004346996","display_name":"Meili Chen","orcid":"https://orcid.org/0000-0003-0102-0292"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I2801577699","display_name":"Beijing Institute of Genomics","ror":"https://ror.org/049gn7z52","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I2801577699"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Meili Chen","raw_affiliation_strings":["CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China"],"affiliations":[{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]},{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009289581","display_name":"Jingfa Xiao","orcid":"https://orcid.org/0000-0002-2835-4340"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I2801577699","display_name":"Beijing Institute of Genomics","ror":"https://ror.org/049gn7z52","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I2801577699"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingfa Xiao","raw_affiliation_strings":["CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China"],"affiliations":[{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]},{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100728445","display_name":"Jun Yu","orcid":"https://orcid.org/0000-0002-2702-055X"},"institutions":[{"id":"https://openalex.org/I2801577699","display_name":"Beijing Institute of Genomics","ror":"https://ror.org/049gn7z52","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I2801577699"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jun Yu","raw_affiliation_strings":["CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China"],"affiliations":[{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]},{"raw_affiliation_string":"CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, China","institution_ids":["https://openalex.org/I2801577699","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073200513","display_name":"Xuebin Chi","orcid":"https://orcid.org/0000-0002-0150-5815"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuebin Chi","raw_affiliation_strings":["Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China#TAB#"],"affiliations":[{"raw_affiliation_string":"Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210108629","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China#TAB#","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100715016","display_name":"Zhong Jin","orcid":"https://orcid.org/0000-0001-8860-8579"},"institutions":[{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhong Jin","raw_affiliation_strings":["Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China#TAB#"],"affiliations":[{"raw_affiliation_string":"Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210108629","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Supercomputing Center, Computer Network Information Center, Chinese Academy of Sciences, Beijing, China#TAB#","institution_ids":["https://openalex.org/I19820366"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5049782464"],"corresponding_institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.06878165,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"8","issue":null,"first_page":"252","last_page":"255"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","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/T10604","display_name":"RNA Research and Splicing","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/T11482","display_name":"RNA modifications and cancer","score":0.9997000098228455,"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":0.9994000196456909,"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/splice","display_name":"splice","score":0.7787766456604004},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6999430656433105},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5398475527763367},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.5343239903450012},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.523163914680481},{"id":"https://openalex.org/keywords/shotgun-sequencing","display_name":"Shotgun sequencing","score":0.4450341463088989},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4435698390007019},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.4238501787185669},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.39885178208351135},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.3272801637649536},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.24081051349639893},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.23762327432632446},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1501321792602539},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1486830711364746},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.07905462384223938}],"concepts":[{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.7787766456604004},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6999430656433105},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5398475527763367},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.5343239903450012},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.523163914680481},{"id":"https://openalex.org/C101985253","wikidata":"https://www.wikidata.org/wiki/Q1073526","display_name":"Shotgun sequencing","level":4,"score":0.4450341463088989},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4435698390007019},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.4238501787185669},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.39885178208351135},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.3272801637649536},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.24081051349639893},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.23762327432632446},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1501321792602539},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1486830711364746},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.07905462384223938},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"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":1,"locations":[{"id":"doi:10.1109/isb.2012.6314145","is_oa":false,"landing_page_url":"https://doi.org/10.1109/isb.2012.6314145","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 6th International Conference on Systems Biology (ISB)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W1981509058","https://openalex.org/W2024976844","https://openalex.org/W2055770801","https://openalex.org/W2097065948","https://openalex.org/W2097862362","https://openalex.org/W2103441770","https://openalex.org/W2108234281","https://openalex.org/W2112113834","https://openalex.org/W2114992132","https://openalex.org/W2119279650","https://openalex.org/W2120293208","https://openalex.org/W2122789575","https://openalex.org/W2124985265","https://openalex.org/W2126144698","https://openalex.org/W2134924833","https://openalex.org/W2154431984","https://openalex.org/W2158322625"],"related_works":["https://openalex.org/W4394359997","https://openalex.org/W4362511652","https://openalex.org/W1943031701","https://openalex.org/W4362511917","https://openalex.org/W4362511922","https://openalex.org/W4362485688","https://openalex.org/W3129862691","https://openalex.org/W4362530184","https://openalex.org/W4362530193","https://openalex.org/W2904597490"],"abstract_inverted_index":{"RNA-Seq":[0,30,72],"is":[1,32,106,116],"a":[2,37,64,100,107],"revolutionary":[3],"whole":[4],"transcriptome":[5],"shotgun":[6],"sequencing":[7],"technology":[8],"performed":[9],"by":[10],"high-throughput":[11],"sequencers,":[12],"which":[13,70],"provide":[14],"more":[15,54],"comprehensive":[16],"information":[17],"on":[18,25,40],"differential":[19],"expression":[20],"of":[21],"genes":[22],"and":[23,96],"benefit":[24],"novel":[26],"splice":[27,76,85],"variants":[28],"identification.":[29],"reads":[31,42],"so":[33],"short":[34],"that":[35],"it's":[36],"great":[38],"challenge":[39],"mapping":[41,59,87],"back":[43],"to":[44,74],"the":[45,58],"reference":[46],"effectively,":[47],"especially":[48],"when":[49],"they":[50],"span":[51],"two":[52],"or":[53],"exons.":[55],"To":[56],"improve":[57],"efficiency,":[60],"we":[61],"introduce":[62],"here":[63],"bi-direction":[65],"alignment":[66],"tool":[67],"-":[68],"BAsplice,":[69],"use":[71],"data":[73],"detect":[75],"junctions":[77],"without":[78],"any":[79],"additional":[80],"information.":[81],"Compare":[82],"with":[83],"another":[84],"junction":[86],"software,":[88],"SOAPsplice,":[89],"BAsplice":[90,105],"performs":[91],"better":[92],"in":[93,103,112],"call":[94],"rate":[95],"running":[97],"time,":[98],"but":[99],"little":[101],"worse":[102],"accuracy.":[104],"free":[108],"open-source":[109],"software":[110],"written":[111],"C":[113],"language.":[114],"It":[115],"available":[117],"at":[118],"https://github.com/vlcc/basplice.":[119]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
