{"id":"https://openalex.org/W2162259262","doi":"https://doi.org/10.1186/s12918-014-0097-z","title":"Pegasus: a comprehensive annotation and prediction tool for detection of driver gene fusions in cancer","display_name":"Pegasus: a comprehensive annotation and prediction tool for detection of driver gene fusions in cancer","publication_year":2014,"publication_date":"2014-09-03","ids":{"openalex":"https://openalex.org/W2162259262","doi":"https://doi.org/10.1186/s12918-014-0097-z","mag":"2162259262","pmid":"https://pubmed.ncbi.nlm.nih.gov/25183062"},"language":"en","primary_location":{"id":"doi:10.1186/s12918-014-0097-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0097-z","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0097-z","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0097-z","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002649650","display_name":"Francesco Abate","orcid":"https://orcid.org/0000-0002-5665-1828"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Francesco Abate","raw_affiliation_strings":["Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. fa2306@columbia.edu","Department of Biomedical Informatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. fa2306@columbia.edu","Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy. fa2306@columbia.edu","Department of Biomedical Informatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. fa2306@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Biomedical Informatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. fa2306@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy. fa2306@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Biomedical Informatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057906666","display_name":"Sakellarios Zairis","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sakellarios Zairis","raw_affiliation_strings":["Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. siz2102@columbia.edu","Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. siz2102@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068452817","display_name":"Elisa Ficarra","orcid":"https://orcid.org/0000-0002-8061-2124"},"institutions":[{"id":"https://openalex.org/I177477856","display_name":"Polytechnic University of Turin","ror":"https://ror.org/00bgk9508","country_code":"IT","type":"education","lineage":["https://openalex.org/I177477856"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Elisa Ficarra","raw_affiliation_strings":["Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy. elisa.ficarra@polito.it","Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy. elisa.ficarra@polito.it","institution_ids":[]},{"raw_affiliation_string":"Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy","institution_ids":["https://openalex.org/I177477856"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031653904","display_name":"Andrea Acquaviva","orcid":"https://orcid.org/0000-0002-7323-759X"},"institutions":[{"id":"https://openalex.org/I177477856","display_name":"Polytechnic University of Turin","ror":"https://ror.org/00bgk9508","country_code":"IT","type":"education","lineage":["https://openalex.org/I177477856"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Andrea Acquaviva","raw_affiliation_strings":["Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy. andrea.acquaviva@polito.it","Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy. andrea.acquaviva@polito.it","institution_ids":[]},{"raw_affiliation_string":"Department of Control and Computer Engineering, Politecnico di Torino, Torino, 10129, Italy","institution_ids":["https://openalex.org/I177477856"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085649470","display_name":"Chris H. Wiggins","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chris H Wiggins","raw_affiliation_strings":["Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. chris.wiggins@columbia.edu","Department of Applied Physics and Applied Mathematics, The Fu Foundation School for Engineering and Applied Sciences, Columbia University, 500 W. 120th Street, Mudd 200, MC 4701, New York, New York, 10027, USA. chris.wiggins@columbia.edu","Institute for Data Sciences and Engineering, Columbia University, 500 W. 120th Street, Mudd 524, New York, New York, 10027, USA. chris.wiggins@columbia.edu","Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. chris.wiggins@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Applied Physics and Applied Mathematics, The Fu Foundation School for Engineering and Applied Sciences, Columbia University, 500 W. 120th Street, Mudd 200, MC 4701, New York, New York, 10027, USA. chris.wiggins@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Institute for Data Sciences and Engineering, Columbia University, 500 W. 120th Street, Mudd 524, New York, New York, 10027, USA. chris.wiggins@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021317075","display_name":"Veroniqu\u00e8 Frattini","orcid":"https://orcid.org/0009-0008-9260-6718"},"institutions":[{"id":"https://openalex.org/I4210145812","display_name":"Cancer Genetics (United States)","ror":"https://ror.org/05feyya22","country_code":"US","type":"company","lineage":["https://openalex.org/I4210145812"]},{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Veronique Frattini","raw_affiliation_strings":["Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA. vf2206@columbia.edu","Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA. vf2206@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA","institution_ids":["https://openalex.org/I2799503643","https://openalex.org/I4210145812"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053349450","display_name":"Anna Lasorella","orcid":"https://orcid.org/0000-0002-1839-5421"},"institutions":[{"id":"https://openalex.org/I4210145812","display_name":"Cancer Genetics (United States)","ror":"https://ror.org/05feyya22","country_code":"US","type":"company","lineage":["https://openalex.org/I4210145812"]},{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anna Lasorella","raw_affiliation_strings":["Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA. al2179@columbia.edu","Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA. al2179@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA","institution_ids":["https://openalex.org/I2799503643","https://openalex.org/I4210145812"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078024735","display_name":"Antonio Iavarone","orcid":"https://orcid.org/0000-0002-0683-4634"},"institutions":[{"id":"https://openalex.org/I4210145812","display_name":"Cancer Genetics (United States)","ror":"https://ror.org/05feyya22","country_code":"US","type":"company","lineage":["https://openalex.org/I4210145812"]},{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Antonio Iavarone","raw_affiliation_strings":["Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA. ai2102@columbia.edu","Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA. ai2102@columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Institute for Cancer Genetics, Columbia University Medical Center, New York, New York, USA","institution_ids":["https://openalex.org/I2799503643","https://openalex.org/I4210145812"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006640724","display_name":"Giorgio Inghirami","orcid":"https://orcid.org/0000-0001-5566-0864"},"institutions":[{"id":"https://openalex.org/I55143463","display_name":"University of Turin","ror":"https://ror.org/048tbm396","country_code":"IT","type":"education","lineage":["https://openalex.org/I55143463"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giorgio Inghirami","raw_affiliation_strings":["Department of Pathology, Center for Experimental Research and Medical Studies, Laboratory of Functional Genomics, University of Torino, Torino, Italy. ggi9001@med.cornell.edu","Department of Pathology, Center for Experimental Research and Medical Studies, Laboratory of Functional Genomics, University of Torino, Torino, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, Center for Experimental Research and Medical Studies, Laboratory of Functional Genomics, University of Torino, Torino, Italy. ggi9001@med.cornell.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Pathology, Center for Experimental Research and Medical Studies, Laboratory of Functional Genomics, University of Torino, Torino, Italy","institution_ids":["https://openalex.org/I55143463"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056128255","display_name":"Ra\u00fal Rabad\u00e1n","orcid":"https://orcid.org/0000-0001-7946-9255"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Raul Rabadan","raw_affiliation_strings":["Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. rabadan@dbmi.columbia.edu","Department of Biomedical Informatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. rabadan@dbmi.columbia.edu","Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. rabadan@dbmi.columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Biomedical Informatics, Columbia University, 1130 St. Nicholas Ave, New York, NY, 10032, USA. rabadan@dbmi.columbia.edu","institution_ids":[]},{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, 10032, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5002649650"],"corresponding_institution_ids":["https://openalex.org/I78577930"],"apc_list":null,"apc_paid":null,"fwci":5.3489,"has_fulltext":true,"cited_by_count":73,"citation_normalized_percentile":{"value":0.95963406,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"8","issue":"1","first_page":"97","last_page":"97"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.07329999655485153,"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"}},"topics":[{"id":"https://openalex.org/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.07329999655485153,"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"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.0681999996304512,"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/T10185","display_name":"Lymphoma Diagnosis and Treatment","score":0.06419999897480011,"subfield":{"id":"https://openalex.org/subfields/2734","display_name":"Pathology and Forensic Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/fusion-gene","display_name":"Fusion gene","score":0.6702616214752197},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6552461981773376},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6097139120101929},{"id":"https://openalex.org/keywords/gene-nomenclature","display_name":"Gene nomenclature","score":0.5539389252662659},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4558410346508026},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.42469367384910583},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.42269012331962585},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.405934602022171},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.3784337639808655},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3293948769569397},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24482661485671997}],"concepts":[{"id":"https://openalex.org/C111829193","wikidata":"https://www.wikidata.org/wiki/Q1108970","display_name":"Fusion gene","level":3,"score":0.6702616214752197},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6552461981773376},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6097139120101929},{"id":"https://openalex.org/C62177273","wikidata":"https://www.wikidata.org/wiki/Q5531556","display_name":"Gene nomenclature","level":4,"score":0.5539389252662659},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4558410346508026},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.42469367384910583},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42269012331962585},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.405934602022171},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.3784337639808655},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3293948769569397},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24482661485671997},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.0},{"id":"https://openalex.org/C514705636","wikidata":"https://www.wikidata.org/wiki/Q863247","display_name":"Nomenclature","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":[{"descriptor_ui":"D003663","descriptor_name":"Decision Trees","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003663","descriptor_name":"Decision Trees","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003663","descriptor_name":"Decision Trees","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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D050939","descriptor_name":"Gene Fusion","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D050939","descriptor_name":"Gene Fusion","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D050939","descriptor_name":"Gene Fusion","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12918-014-0097-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0097-z","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0097-z","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},{"id":"pmid:25183062","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25183062","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 systems biology","raw_type":null},{"id":"pmh:oai:cris.unibo.it:11585/833296","is_oa":false,"landing_page_url":"http://hdl.handle.net/11585/833296","pdf_url":null,"source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:iris.unimore.it:11380/1240363","is_oa":true,"landing_page_url":"http://hdl.handle.net/11380/1240363","pdf_url":null,"source":{"id":"https://openalex.org/S4377196326","display_name":"Iris Unimore (University of Modena and Reggio Emilia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122346577","host_organization_name":"University of Modena and Reggio Emilia","host_organization_lineage":["https://openalex.org/I122346577"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:porto.polito.it:2566737","is_oa":true,"landing_page_url":"http://porto.polito.it/2566737/","pdf_url":null,"source":{"id":"https://openalex.org/S4306402038","display_name":"PORTO Publications Open Repository TOrino (Politecnico di Torino)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I177477856","host_organization_name":"Politecnico di Torino","host_organization_lineage":["https://openalex.org/I177477856"],"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":"ISSN:1752-0509","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4363948","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4363948","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Syst Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12918-014-0097-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0097-z","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0097-z","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.49000000953674316}],"awards":[{"id":"https://openalex.org/G3826366190","display_name":null,"funder_award_id":"10007","funder_id":"https://openalex.org/F4320323054","funder_display_name":"Associazione Italiana per la Ricerca sul Cancro"}],"funders":[{"id":"https://openalex.org/F4320306523","display_name":"Alexander and Margaret Stewart Trust","ror":"https://ror.org/03nsgj842"},{"id":"https://openalex.org/F4320309746","display_name":"Compagnia di San Paolo","ror":"https://ror.org/00d1b1c41"},{"id":"https://openalex.org/F4320313985","display_name":"Politecnico di Torino","ror":"https://ror.org/00bgk9508"},{"id":"https://openalex.org/F4320323054","display_name":"Associazione Italiana per la Ricerca sul Cancro","ror":"https://ror.org/02g2x7380"},{"id":"https://openalex.org/F4320326081","display_name":"Regione Piemonte","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2162259262.pdf","grobid_xml":"https://content.openalex.org/works/W2162259262.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W1480376833","https://openalex.org/W1483620247","https://openalex.org/W1510546584","https://openalex.org/W1585894933","https://openalex.org/W1594031697","https://openalex.org/W1678356000","https://openalex.org/W1754443473","https://openalex.org/W1915589771","https://openalex.org/W1972417326","https://openalex.org/W1982088425","https://openalex.org/W2005036868","https://openalex.org/W2016538215","https://openalex.org/W2024046085","https://openalex.org/W2026099579","https://openalex.org/W2029623390","https://openalex.org/W2038586807","https://openalex.org/W2055402151","https://openalex.org/W2059300459","https://openalex.org/W2060842569","https://openalex.org/W2061278019","https://openalex.org/W2079110747","https://openalex.org/W2097065948","https://openalex.org/W2101234009","https://openalex.org/W2102450275","https://openalex.org/W2103569192","https://openalex.org/W2109816625","https://openalex.org/W2113235293","https://openalex.org/W2114289944","https://openalex.org/W2116398954","https://openalex.org/W2121158863","https://openalex.org/W2121761025","https://openalex.org/W2124887618","https://openalex.org/W2141244898","https://openalex.org/W2141458291","https://openalex.org/W2144283851","https://openalex.org/W2163401417","https://openalex.org/W2169810552","https://openalex.org/W2330820318","https://openalex.org/W2518697824","https://openalex.org/W2884843966","https://openalex.org/W3085162807","https://openalex.org/W4210347168","https://openalex.org/W4233334497","https://openalex.org/W4247477139"],"related_works":["https://openalex.org/W2901823680","https://openalex.org/W1999129612","https://openalex.org/W2009940763","https://openalex.org/W4361192415","https://openalex.org/W2126804125","https://openalex.org/W2946410450","https://openalex.org/W2137318037","https://openalex.org/W2059565715","https://openalex.org/W2116418175","https://openalex.org/W2127546476"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1],"extraordinary":[2],"success":[3],"of":[4,9,30,48,77,103,121,127,134,158,168,179,186],"imatinib":[5],"in":[6,22,170,175],"the":[7,14,46,99,140,147,166],"treatment":[8],"BCR-ABL1":[10],"associated":[11],"cancers":[12],"underscores":[13],"need":[15],"to":[16],"identify":[17],"novel":[18,122],"functional":[19,35,105,129],"gene":[20,36,106,116,144],"fusions":[21,174],"cancer.":[23],"RNA":[24],"sequencing":[25],"offers":[26],"a":[27,95,111,154],"genome-wide":[28],"view":[29],"expressed":[31],"transcripts,":[32,51],"uncovering":[33],"biologically":[34,104],"fusions.":[37],"Although":[38],"several":[39],"bioinformatics":[40],"tools":[41],"are":[42,55,82],"already":[43],"available":[44],"for":[45,85,98,114,142,160],"detection":[47,118],"putative":[49],"fusion":[50,107,117,123],"candidate":[52],"event":[53],"lists":[54,73],"plagued":[56],"with":[57],"non-functional":[58],"read-through":[59],"events,":[60,65],"reverse":[61],"transcriptase":[62],"template":[63],"switching":[64],"incorrect":[66],"mapping,":[67],"and":[68,80,93,101,131,153,183],"other":[69],"systematic":[70],"errors.":[71],"Such":[72],"lack":[74],"any":[75],"indication":[76],"oncogenic":[78,135,143],"relevance,":[79],"they":[81],"too":[83],"large":[84,188],"exhaustive":[86],"experimental":[87,161],"validation.":[88,162],"RESULTS:":[89],"We":[90,164],"have":[91],"designed":[92],"implemented":[94],"pipeline,":[96],"Pegasus,":[97],"annotation":[100,126],"prediction":[102],"candidates.":[108],"Pegasus":[109,137,169],"provides":[110],"common":[112],"interface":[113],"various":[115],"tools,":[119],"reconstruction":[120],"proteins,":[124],"reading-frame-aware":[125],"preserved/lost":[128],"domains,":[130],"data-driven":[132],"classification":[133],"potential.":[136],"dramatically":[138],"streamlines":[139],"search":[141],"fusions,":[145],"bridging":[146],"gap":[148],"between":[149],"raw":[150],"RNA-Seq":[151,177],"data":[152],"final,":[155],"tractable":[156],"list":[157],"candidates":[159],"CONCLUSION:":[163],"show":[165],"effectiveness":[167],"predicting":[171],"new":[172],"driver":[173],"176":[176],"samples":[178],"glioblastoma":[180],"multiforme":[181],"(GBM)":[182],"23":[184],"cases":[185],"anaplastic":[187],"cell":[189],"lymphoma":[190],"(ALCL).":[191]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":11},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":13},{"year":2015,"cited_by_count":3}],"updated_date":"2026-05-05T08:41:31.759640","created_date":"2025-10-10T00:00:00"}