{"id":"https://openalex.org/W3186338429","doi":"https://doi.org/10.1093/bioinformatics/btab540","title":"Accurate spliced alignment of long RNA sequencing reads","display_name":"Accurate spliced alignment of long RNA sequencing reads","publication_year":2021,"publication_date":"2021-07-20","ids":{"openalex":"https://openalex.org/W3186338429","doi":"https://doi.org/10.1093/bioinformatics/btab540","mag":"3186338429","pmid":"https://pubmed.ncbi.nlm.nih.gov/34302453"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab540","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab540","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/24/4643/41726811/btab540.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/37/24/4643/41726811/btab540.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082939519","display_name":"Kristoffer Sahlin","orcid":"https://orcid.org/0000-0001-7378-2320"},"institutions":[{"id":"https://openalex.org/I161593684","display_name":"Stockholm University","ror":"https://ror.org/05f0yaq80","country_code":"SE","type":"education","lineage":["https://openalex.org/I161593684"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Kristoffer Sahlin","raw_affiliation_strings":["Department of Mathematics, Science for Life Laboratory, Stockholm University , 106 91 Stockholm, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Science for Life Laboratory, Stockholm University , 106 91 Stockholm, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5043558409","display_name":"Veli M\u00e4kinen","orcid":"https://orcid.org/0000-0003-4454-1493"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Veli M\u00e4kinen","raw_affiliation_strings":["Department of Computer Science, University of Helsinki , 00014 Helsinki, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Helsinki , 00014 Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5082939519"],"corresponding_institution_ids":["https://openalex.org/I161593684","https://openalex.org/I2800139495"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":3.0095,"has_fulltext":false,"cited_by_count":44,"citation_normalized_percentile":{"value":0.92655866,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"37","issue":"24","first_page":"4643","last_page":"4651"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","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/T10015","display_name":"Genomics and Phylogenetic Studies","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":0.9975000023841858,"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":0.9961000084877014,"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/exon","display_name":"Exon","score":0.7363724708557129},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5991863012313843},{"id":"https://openalex.org/keywords/chaining","display_name":"Chaining","score":0.559865415096283},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4929640293121338},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4555578827857971},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.44535496830940247},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.432406485080719},{"id":"https://openalex.org/keywords/splice","display_name":"splice","score":0.43022239208221436},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.42388927936553955},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.34695541858673096},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26427826285362244},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.252838134765625},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.24500614404678345},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1726897656917572}],"concepts":[{"id":"https://openalex.org/C36823959","wikidata":"https://www.wikidata.org/wiki/Q373027","display_name":"Exon","level":3,"score":0.7363724708557129},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5991863012313843},{"id":"https://openalex.org/C49020025","wikidata":"https://www.wikidata.org/wiki/Q1059099","display_name":"Chaining","level":2,"score":0.559865415096283},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4929640293121338},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4555578827857971},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.44535496830940247},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.432406485080719},{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.43022239208221436},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.42388927936553955},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.34695541858673096},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26427826285362244},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.252838134765625},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.24500614404678345},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1726897656917572},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btab540","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab540","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/24/4643/41726811/btab540.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:34302453","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34302453","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:helda.helsinki.fi:10138/338305","is_oa":true,"landing_page_url":"http://hdl.handle.net/10138/338305","pdf_url":null,"source":{"id":"https://openalex.org/S4210213322","display_name":"Ty\u00f6v\u00e4entutkimus Vuosikirja","issn_l":"0784-1272","issn":["0784-1272","1459-7780"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8665758","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8665758","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/btab540","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab540","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/24/4643/41726811/btab540.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/G3444565068","display_name":null,"funder_award_id":"309048","funder_id":"https://openalex.org/F4320321108","funder_display_name":"Academy of Finland"}],"funders":[{"id":"https://openalex.org/F4320321108","display_name":"Academy of Finland","ror":"https://ror.org/05k73zm37"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3186338429.pdf","grobid_xml":"https://content.openalex.org/works/W3186338429.grobid-xml"},"referenced_works_count":43,"referenced_works":["https://openalex.org/W2000037709","https://openalex.org/W2094702043","https://openalex.org/W2097065948","https://openalex.org/W2102278945","https://openalex.org/W2119372415","https://openalex.org/W2136145671","https://openalex.org/W2136899396","https://openalex.org/W2144560237","https://openalex.org/W2169456326","https://openalex.org/W2260037449","https://openalex.org/W2396082581","https://openalex.org/W2408427435","https://openalex.org/W2463761386","https://openalex.org/W2474869522","https://openalex.org/W2743624002","https://openalex.org/W2789843538","https://openalex.org/W2794778348","https://openalex.org/W2886059981","https://openalex.org/W2897200459","https://openalex.org/W2899345312","https://openalex.org/W2907266908","https://openalex.org/W2949395034","https://openalex.org/W2950465644","https://openalex.org/W2952666313","https://openalex.org/W2953174564","https://openalex.org/W2958870997","https://openalex.org/W2961715161","https://openalex.org/W2963963068","https://openalex.org/W2964849163","https://openalex.org/W2966678303","https://openalex.org/W2989499631","https://openalex.org/W2995995746","https://openalex.org/W3023579900","https://openalex.org/W3045473232","https://openalex.org/W3119188679","https://openalex.org/W3128238256","https://openalex.org/W3134859020","https://openalex.org/W4285217451","https://openalex.org/W4293196852","https://openalex.org/W6763950045","https://openalex.org/W6789971108","https://openalex.org/W6790430245","https://openalex.org/W6842402754"],"related_works":["https://openalex.org/W1943031701","https://openalex.org/W3129862691","https://openalex.org/W1993348797","https://openalex.org/W3006402873","https://openalex.org/W2887346131","https://openalex.org/W2008832338","https://openalex.org/W2014791263","https://openalex.org/W2619166255","https://openalex.org/W3132115146","https://openalex.org/W1969673184"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":11},{"year":2023,"cited_by_count":12},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":5}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
