{"id":"https://openalex.org/W2107420975","doi":"https://doi.org/10.1093/bioinformatics/btt704","title":"Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data","display_name":"Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data","publication_year":2013,"publication_date":"2013-12-03","ids":{"openalex":"https://openalex.org/W2107420975","doi":"https://doi.org/10.1093/bioinformatics/btt704","mag":"2107420975","pmid":"https://pubmed.ncbi.nlm.nih.gov/24307704"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt704","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt704","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/506/17343998/btt704.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":null,"license_id":null,"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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/506/17343998/btt704.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066832333","display_name":"Chen Suo","orcid":"https://orcid.org/0000-0002-5274-4584"},"institutions":[{"id":"https://openalex.org/I196829312","display_name":"La Trobe University","ror":"https://ror.org/01rxfrp27","country_code":"AU","type":"education","lineage":["https://openalex.org/I196829312"]},{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]},{"id":"https://openalex.org/I79940851","display_name":"University of Brescia","ror":"https://ror.org/02q2d2610","country_code":"IT","type":"education","lineage":["https://openalex.org/I79940851"]}],"countries":["AU","IT","SE"],"is_corresponding":false,"raw_author_name":"Chen Suo","raw_affiliation_strings":["1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia","institution_ids":["https://openalex.org/I196829312","https://openalex.org/I79940851","https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010513681","display_name":"Stefano Calza","orcid":"https://orcid.org/0000-0003-4996-7995"},"institutions":[{"id":"https://openalex.org/I196829312","display_name":"La Trobe University","ror":"https://ror.org/01rxfrp27","country_code":"AU","type":"education","lineage":["https://openalex.org/I196829312"]},{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]},{"id":"https://openalex.org/I79940851","display_name":"University of Brescia","ror":"https://ror.org/02q2d2610","country_code":"IT","type":"education","lineage":["https://openalex.org/I79940851"]}],"countries":["AU","IT","SE"],"is_corresponding":false,"raw_author_name":"Stefano Calza","raw_affiliation_strings":["1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia","institution_ids":["https://openalex.org/I196829312","https://openalex.org/I79940851","https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006817516","display_name":"Agus Salim","orcid":"https://orcid.org/0000-0003-3999-7701"},"institutions":[{"id":"https://openalex.org/I196829312","display_name":"La Trobe University","ror":"https://ror.org/01rxfrp27","country_code":"AU","type":"education","lineage":["https://openalex.org/I196829312"]},{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]},{"id":"https://openalex.org/I79940851","display_name":"University of Brescia","ror":"https://ror.org/02q2d2610","country_code":"IT","type":"education","lineage":["https://openalex.org/I79940851"]}],"countries":["AU","IT","SE"],"is_corresponding":false,"raw_author_name":"Agus Salim","raw_affiliation_strings":["1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia","institution_ids":["https://openalex.org/I196829312","https://openalex.org/I79940851","https://openalex.org/I28166907"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012606625","display_name":"Yudi Pawitan","orcid":"https://orcid.org/0000-0003-0324-7052"},"institutions":[{"id":"https://openalex.org/I196829312","display_name":"La Trobe University","ror":"https://ror.org/01rxfrp27","country_code":"AU","type":"education","lineage":["https://openalex.org/I196829312"]},{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]},{"id":"https://openalex.org/I79940851","display_name":"University of Brescia","ror":"https://ror.org/02q2d2610","country_code":"IT","type":"education","lineage":["https://openalex.org/I79940851"]}],"countries":["AU","IT","SE"],"is_corresponding":true,"raw_author_name":"Yudi Pawitan","raw_affiliation_strings":["1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, 2Department of Molecular and Translational Medicine, University of Brescia, Italy and 3Department of Mathematics and Statistics, La Trobe University, Australia","institution_ids":["https://openalex.org/I196829312","https://openalex.org/I79940851","https://openalex.org/I28166907"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5012606625"],"corresponding_institution_ids":["https://openalex.org/I196829312","https://openalex.org/I28166907","https://openalex.org/I79940851"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.5435,"has_fulltext":true,"cited_by_count":21,"citation_normalized_percentile":{"value":0.89783501,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"30","issue":"4","first_page":"506","last_page":"513"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.6165000200271606,"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":0.6165000200271606,"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/T10885","display_name":"Gene expression and cancer classification","score":0.09390000253915787,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.05999999865889549,"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":0.5917803645133972},{"id":"https://openalex.org/keywords/identifiability","display_name":"Identifiability","score":0.5220020413398743},{"id":"https://openalex.org/keywords/smoothing","display_name":"Smoothing","score":0.4705429673194885},{"id":"https://openalex.org/keywords/gene-isoform","display_name":"Gene isoform","score":0.4465640187263489},{"id":"https://openalex.org/keywords/joint-probability-distribution","display_name":"Joint probability distribution","score":0.4445885419845581},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.38127535581588745},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.34871143102645874},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.346357524394989},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.2903671860694885},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.26607728004455566},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21193304657936096},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17564520239830017},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.1490839123725891},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11821147799491882}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5917803645133972},{"id":"https://openalex.org/C122770356","wikidata":"https://www.wikidata.org/wiki/Q1656753","display_name":"Identifiability","level":2,"score":0.5220020413398743},{"id":"https://openalex.org/C3770464","wikidata":"https://www.wikidata.org/wiki/Q775963","display_name":"Smoothing","level":2,"score":0.4705429673194885},{"id":"https://openalex.org/C53345823","wikidata":"https://www.wikidata.org/wiki/Q5531554","display_name":"Gene isoform","level":3,"score":0.4465640187263489},{"id":"https://openalex.org/C18653775","wikidata":"https://www.wikidata.org/wiki/Q1333358","display_name":"Joint probability distribution","level":2,"score":0.4445885419845581},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.38127535581588745},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.34871143102645874},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.346357524394989},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.2903671860694885},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.26607728004455566},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21193304657936096},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17564520239830017},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.1490839123725891},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11821147799491882},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008099","descriptor_name":"Liver","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008099","descriptor_name":"Liver","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008099","descriptor_name":"Liver","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018482","descriptor_name":"Muscle, Skeletal","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018482","descriptor_name":"Muscle, Skeletal","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018482","descriptor_name":"Muscle, Skeletal","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020133","descriptor_name":"Reverse Transcriptase Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020133","descriptor_name":"Reverse Transcriptase Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020133","descriptor_name":"Reverse Transcriptase Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","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":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060888","descriptor_name":"Real-Time Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060888","descriptor_name":"Real-Time Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060888","descriptor_name":"Real-Time Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btt704","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt704","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/506/17343998/btt704.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24307704","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24307704","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:iris.unibs.it:11379/307706","is_oa":true,"landing_page_url":"http://hdl.handle.net/11379/307706","pdf_url":null,"source":{"id":"https://openalex.org/S4306400804","display_name":"Institutional Research Information System (Universit\u00e0 degli Studi di Brescia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt704","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt704","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/506/17343998/btt704.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":null,"license_id":null,"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/W2107420975.pdf","grobid_xml":"https://content.openalex.org/works/W2107420975.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W1490229695","https://openalex.org/W1559742681","https://openalex.org/W2003605043","https://openalex.org/W2009893473","https://openalex.org/W2010637767","https://openalex.org/W2013340095","https://openalex.org/W2023621259","https://openalex.org/W2075665712","https://openalex.org/W2082639035","https://openalex.org/W2097065948","https://openalex.org/W2097860373","https://openalex.org/W2100448568","https://openalex.org/W2103441770","https://openalex.org/W2105875994","https://openalex.org/W2108234281","https://openalex.org/W2113059024","https://openalex.org/W2124985265","https://openalex.org/W2138443081","https://openalex.org/W2138773756","https://openalex.org/W2139903782","https://openalex.org/W2141458291","https://openalex.org/W2154431984","https://openalex.org/W2154537630","https://openalex.org/W2155804510","https://openalex.org/W2158085979","https://openalex.org/W2158297569","https://openalex.org/W2170129927","https://openalex.org/W4388322985"],"related_works":["https://openalex.org/W2724847603","https://openalex.org/W2034041141","https://openalex.org/W2184661725","https://openalex.org/W2900187352","https://openalex.org/W2573470972","https://openalex.org/W2105626102","https://openalex.org/W2131038454","https://openalex.org/W112856298","https://openalex.org/W4320340793","https://openalex.org/W3105237052"],"abstract_inverted_index":{"MOTIVATION:":[0],"RNA-sequencing":[1],"technologies":[2],"provide":[3],"a":[4,23,61,67,115,140,203],"powerful":[5],"tool":[6],"for":[7,73,125,205],"expression":[8,81],"analysis":[9],"at":[10],"gene":[11,79],"and":[12,78,142,152,158],"isoform":[13,19,80],"level,":[14],"but":[15],"accurate":[16],"estimation":[17],"of":[18,27,93,105,182,208],"abundance":[20],"is":[21,39,45,54,86,118],"still":[22],"challenge.":[24],"Standard":[25],"assumption":[26],"uniform":[28],"read":[29,37,51,76,95],"intensity":[30,38,52],"would":[31],"yield":[32],"biased":[33],"estimates":[34],"when":[35],"the":[36,50,90,103,109,122,128,135,148],"in":[40,60,87,108,180,185,196],"fact":[41],"non-uniform.":[42],"The":[43,83],"problem":[44],"that,":[46],"without":[47],"strong":[48],"assumptions,":[49],"pattern":[53],"not":[55],"identifiable":[56],"from":[57,134],"data":[58,157],"observed":[59],"single":[62],"sample.":[63],"RESULTS:":[64],"We":[65,138,191],"develop":[66,139],"joint":[68],"statistical":[69,112],"model":[70,174],"that":[71,172],"accounts":[72],"non-uniform":[74],"isoform-specific":[75,94],"distribution":[77],"estimation.":[82,123,187],"main":[84],"challenge":[85],"dealing":[88],"with":[89,163],"large":[91],"number":[92,104],"distributions,":[96],"which":[97],"potentially":[98],"are":[99],"as":[100,102,202],"many":[101],"splice":[106],"variants":[107],"genome.":[110],"A":[111],"regularization":[113],"via":[114],"smoothing":[116],"penalty":[117],"imposed":[119],"to":[120,155],"control":[121],"Also,":[124],"identifiability":[126],"reasons,":[127],"method":[129,195],"uses":[130],"information":[131],"across":[132],"samples":[133],"same":[136],"region.":[137],"fast":[141,206],"robust":[143],"computational":[144],"procedure":[145],"based":[146],"on":[147],"iterated-weighted":[149],"least-squares":[150],"algorithm,":[151],"apply":[153],"it":[154],"simulated":[156],"two":[159],"real":[160],"RNA-Seq":[161,209],"datasets":[162],"reverse":[164],"transcription-polymerase":[165],"chain":[166],"reaction":[167],"validation.":[168],"Empirical":[169],"tests":[170],"show":[171],"our":[173,194],"performs":[175],"better":[176],"than":[177],"existing":[178],"methods":[179],"terms":[181],"increasing":[183],"precision":[184],"isoform-level":[186],"AVAILABILITY":[188],"AND":[189],"IMPLEMENTATION:":[190],"have":[192],"implemented":[193],"an":[197],"R":[198],"package":[199],"called":[200],"Sequgio":[201],"pipeline":[204],"processing":[207],"data.":[210]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":4}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}