{"id":"https://openalex.org/W1971332228","doi":"https://doi.org/10.1186/1471-2105-12-162","title":"NSMAP: A method for spliced isoforms identification and quantification from RNA-Seq","display_name":"NSMAP: A method for spliced isoforms identification and quantification from RNA-Seq","publication_year":2011,"publication_date":"2011-05-16","ids":{"openalex":"https://openalex.org/W1971332228","doi":"https://doi.org/10.1186/1471-2105-12-162","mag":"1971332228","pmid":"https://pubmed.ncbi.nlm.nih.gov/21575225"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-162","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-162","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-162","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-162","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5074941338","display_name":"Zheng Xia","orcid":"https://orcid.org/0000-0003-3364-8324"},"institutions":[{"id":"https://openalex.org/I1295876152","display_name":"Houston Methodist","ror":"https://ror.org/027zt9171","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295876152"]},{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4210109259","display_name":"Methodist Hospital","ror":"https://ror.org/01r5p9y80","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2802827176","https://openalex.org/I4210109259"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Zheng Xia","raw_affiliation_strings":["Department of Radiology, The Methodist Hospital Research Institute, Houston, TX 77030, USA","Department of Radiology, The Methodist Hospital Research Institute, Houston, USA","Weill Cornell Medical College, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Radiology, The Methodist Hospital Research Institute, Houston, TX 77030, USA","institution_ids":["https://openalex.org/I1295876152","https://openalex.org/I4210109259"]},{"raw_affiliation_string":"Department of Radiology, The Methodist Hospital Research Institute, Houston, USA","institution_ids":["https://openalex.org/I1295876152"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, USA","institution_ids":["https://openalex.org/I205783295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100641777","display_name":"Jianguo Wen","orcid":"https://orcid.org/0000-0003-0952-118X"},"institutions":[{"id":"https://openalex.org/I1295876152","display_name":"Houston Methodist","ror":"https://ror.org/027zt9171","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295876152"]},{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4210109259","display_name":"Methodist Hospital","ror":"https://ror.org/01r5p9y80","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2802827176","https://openalex.org/I4210109259"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jianguo Wen","raw_affiliation_strings":["Department of Pathology, The Methodist Hospital Research Institute, Houston, TX, 77030, USA","Weill Cornell Medical College, New York, NY, 10065, USA","Department of Pathology, The Methodist Hospital Research Institute, Houston, USA","Weill Cornell Medical College, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, The Methodist Hospital Research Institute, Houston, TX, 77030, USA","institution_ids":["https://openalex.org/I1295876152","https://openalex.org/I4210109259"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, NY, 10065, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Department of Pathology, The Methodist Hospital Research Institute, Houston, USA","institution_ids":["https://openalex.org/I1295876152"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, USA","institution_ids":["https://openalex.org/I205783295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109156378","display_name":"Chung-Che Chang","orcid":null},"institutions":[{"id":"https://openalex.org/I1295876152","display_name":"Houston Methodist","ror":"https://ror.org/027zt9171","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295876152"]},{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4210109259","display_name":"Methodist Hospital","ror":"https://ror.org/01r5p9y80","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2802827176","https://openalex.org/I4210109259"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chung-Che Chang","raw_affiliation_strings":["Department of Pathology, The Methodist Hospital Research Institute, Houston, TX, 77030, USA","Weill Cornell Medical College, New York, NY, 10065, USA","Weill Cornell Medical College, New York, USA","Department of Pathology, The Methodist Hospital Research Institute, Houston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, The Methodist Hospital Research Institute, Houston, TX, 77030, USA","institution_ids":["https://openalex.org/I1295876152","https://openalex.org/I4210109259"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, NY, 10065, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Department of Pathology, The Methodist Hospital Research Institute, Houston, USA","institution_ids":["https://openalex.org/I1295876152"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040883232","display_name":"Xiaobo Zhou","orcid":"https://orcid.org/0000-0001-7191-6495"},"institutions":[{"id":"https://openalex.org/I1295876152","display_name":"Houston Methodist","ror":"https://ror.org/027zt9171","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295876152"]},{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I4210109259","display_name":"Methodist Hospital","ror":"https://ror.org/01r5p9y80","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2802827176","https://openalex.org/I4210109259"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaobo Zhou","raw_affiliation_strings":["Department of Radiology, The Methodist Hospital Research Institute, Houston, TX, 77030, USA","Weill Cornell Medical College, New York, NY, 10065, USA","Weill Cornell Medical College, New York, USA","Department of Radiology, The Methodist Hospital Research Institute, Houston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Radiology, The Methodist Hospital Research Institute, Houston, TX, 77030, USA","institution_ids":["https://openalex.org/I1295876152","https://openalex.org/I4210109259"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, NY, 10065, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Weill Cornell Medical College, New York, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Department of Radiology, The Methodist Hospital Research Institute, Houston, USA","institution_ids":["https://openalex.org/I1295876152"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5074941338"],"corresponding_institution_ids":["https://openalex.org/I1295876152","https://openalex.org/I205783295","https://openalex.org/I4210109259"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.2613,"has_fulltext":true,"cited_by_count":33,"citation_normalized_percentile":{"value":0.8772574,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"162","last_page":"162"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.38920000195503235,"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":0.38920000195503235,"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/T10309","display_name":"Acute Myeloid Leukemia Research","score":0.12700000405311584,"subfield":{"id":"https://openalex.org/subfields/2720","display_name":"Hematology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.0471000000834465,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/rna-seq","display_name":"RNA-Seq","score":0.7592777013778687},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.7345240116119385},{"id":"https://openalex.org/keywords/gene-isoform","display_name":"Gene isoform","score":0.6392730474472046},{"id":"https://openalex.org/keywords/alternative-splicing","display_name":"Alternative splicing","score":0.5962742567062378},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5616363286972046},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5517999529838562},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5506274104118347},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.49023371934890747},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.48034584522247314},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4775965213775635},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4480314254760742},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3690430223941803},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.35391825437545776},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.33758753538131714}],"concepts":[{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.7592777013778687},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.7345240116119385},{"id":"https://openalex.org/C53345823","wikidata":"https://www.wikidata.org/wiki/Q5531554","display_name":"Gene isoform","level":3,"score":0.6392730474472046},{"id":"https://openalex.org/C194583182","wikidata":"https://www.wikidata.org/wiki/Q21114084","display_name":"Alternative splicing","level":4,"score":0.5962742567062378},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5616363286972046},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5517999529838562},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5506274104118347},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.49023371934890747},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.48034584522247314},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4775965213775635},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4480314254760742},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3690430223941803},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.35391825437545776},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.33758753538131714},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","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":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012326","descriptor_name":"RNA Splicing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012326","descriptor_name":"RNA Splicing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012326","descriptor_name":"RNA Splicing","qualifier_ui":null,"qualifier_name":null,"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":"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":"D015345","descriptor_name":"Oligonucleotide Probes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015345","descriptor_name":"Oligonucleotide Probes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015345","descriptor_name":"Oligonucleotide Probes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020033","descriptor_name":"Protein Isoforms","qualifier_ui":"Q000737","qualifier_name":"chemistry","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}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-12-162","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-162","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-162","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21575225","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21575225","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:f002c118b6ae480ca6a25cd4fcfa965b","is_oa":true,"landing_page_url":"https://doaj.org/article/f002c118b6ae480ca6a25cd4fcfa965b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 12, Iss 1, p 162 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3113944","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3113944","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-162","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-162","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-162","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1196340884","display_name":null,"funder_award_id":"1R01LM010185","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4110157755","display_name":null,"funder_award_id":"1R01LM010185-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1971332228.pdf","grobid_xml":"https://content.openalex.org/works/W1971332228.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W144334492","https://openalex.org/W1549698322","https://openalex.org/W1968475238","https://openalex.org/W1976826388","https://openalex.org/W1986113553","https://openalex.org/W2000875411","https://openalex.org/W2003605043","https://openalex.org/W2004544971","https://openalex.org/W2011920499","https://openalex.org/W2024819063","https://openalex.org/W2038230536","https://openalex.org/W2044935944","https://openalex.org/W2063978378","https://openalex.org/W2071284784","https://openalex.org/W2086323500","https://openalex.org/W2097065948","https://openalex.org/W2100448568","https://openalex.org/W2107564978","https://openalex.org/W2112113834","https://openalex.org/W2113386140","https://openalex.org/W2121211805","https://openalex.org/W2122789575","https://openalex.org/W2124985265","https://openalex.org/W2127640118","https://openalex.org/W2134786821","https://openalex.org/W2141458291","https://openalex.org/W2149216980","https://openalex.org/W2151081606","https://openalex.org/W2154431984","https://openalex.org/W2158085979","https://openalex.org/W2166797651","https://openalex.org/W2170765088","https://openalex.org/W2799002609","https://openalex.org/W2913088541","https://openalex.org/W2918025614","https://openalex.org/W3105872783","https://openalex.org/W4240458502"],"related_works":["https://openalex.org/W2321791250","https://openalex.org/W4213427798","https://openalex.org/W2023199111","https://openalex.org/W2564462691","https://openalex.org/W2065030615","https://openalex.org/W2885403345","https://openalex.org/W2052498125","https://openalex.org/W4387768639","https://openalex.org/W2094867951","https://openalex.org/W1535548930"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1],"development":[2],"of":[3,40,60,68,105,122,125,130,134,143,174,211,221],"techniques":[4],"for":[5],"sequencing":[6],"the":[7,15,37,45,49,58,61,65,102,111,123,131,146,209,219],"messenger":[8],"RNA":[9],"(RNA-Seq)":[10],"enables":[11,140],"it":[12],"to":[13,35,57,100,116,185,202],"study":[14,73],"biological":[16],"mechanisms":[17],"such":[18],"as":[19],"alternative":[20],"splicing":[21],"and":[22,28,77,90,128,163,179,190,204],"gene":[23],"expression":[24,38,103,132],"regulation":[25],"more":[26,155],"deeply":[27],"accurately.":[29],"Most":[30],"existing":[31],"methods":[32],"employ":[33],"RNA-Seq":[34,81,108,152,171,222],"quantify":[36,205],"levels":[39,104,133],"already":[41],"annotated":[42,212],"isoforms":[43,106,127,137,159,192,207],"from":[44,80,107],"reference":[46,51,213],"genome.":[47],"However,":[48],"current":[50],"genome":[52,214],"is":[53,85,229],"very":[54],"incomplete":[55],"due":[56],"complexity":[59],"transcriptome":[62,69,225],"which":[63,139,215],"hiders":[64],"comprehensive":[66],"investigation":[67],"using":[70],"RNA-Seq.":[71],"Novel":[72],"on":[74,169],"isoform":[75],"inference":[76],"estimation":[78,129],"purely":[79],"without":[82,110,208],"annotation":[83,112],"information":[84],"desirable.":[86],"RESULTS:":[87],"A":[88],"Nonnegativity":[89],"Sparsity":[91],"constrained":[92],"Maximum":[93],"APosteriori":[94],"(NSMAP)":[95],"model":[96],"has":[97],"been":[98],"proposed":[99],"estimate":[101],"data":[109,153,172],"information.":[113],"In":[114,145],"contrast":[115],"previous":[117],"methods,":[118],"NSMAP":[119,168,197,227],"performs":[120],"identification":[121,142],"structures":[124],"expressed":[126,136,158,188],"those":[135],"simultaneously,":[138],"better":[141],"isoforms.":[144],"simulations":[147],"parameterized":[148],"by":[149],"two":[150,170],"real":[151],"sets,":[154],"than":[156],"77%":[157],"are":[160],"correctly":[161],"identified":[162],"quantified.":[164],"Then,":[165],"we":[166],"apply":[167],"sets":[173],"myelodysplastic":[175],"syndromes":[176],"(MDS)":[177],"samples":[178],"one":[180],"normal":[181],"sample":[182],"in":[183,193,224],"order":[184],"identify":[186,203],"differentially":[187],"known":[189],"novel":[191,206],"MDS":[194],"disease.":[195],"CONCLUSIONS:":[196],"provides":[198],"a":[199],"good":[200],"strategy":[201],"knowledge":[210],"can":[216],"further":[217],"realize":[218],"potential":[220],"technique":[223],"analysis.":[226],"package":[228],"freely":[230],"available":[231],"at":[232],"https://sites.google.com/site/nsmapforrnaseq.":[233]},"counts_by_year":[{"year":2021,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":9},{"year":2014,"cited_by_count":7},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
