{"id":"https://openalex.org/W2136887731","doi":"https://doi.org/10.1109/iccabs.2013.6629235","title":"Transcriptome assembly and quantification from Ion Torrent RNA-Seq data","display_name":"Transcriptome assembly and quantification from Ion Torrent RNA-Seq data","publication_year":2013,"publication_date":"2013-06-01","ids":{"openalex":"https://openalex.org/W2136887731","doi":"https://doi.org/10.1109/iccabs.2013.6629235","mag":"2136887731"},"language":"en","primary_location":{"id":"doi:10.1109/iccabs.2013.6629235","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2013.6629235","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE 3rd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017101305","display_name":"Serghei Mangul","orcid":"https://orcid.org/0000-0003-4770-3443"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Serghei Mangul","raw_affiliation_strings":["Department of Computer Science, University of California, Los Angeles, CA, USA","Dept. of Comput. Sci., Univ. of California Los Angeles, Los Angeles, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Univ. of California Los Angeles, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084402022","display_name":"Sahar Al Seesi","orcid":"https://orcid.org/0000-0002-7918-4791"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sahar Al Seesi","raw_affiliation_strings":["Department of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","Deptment of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]},{"raw_affiliation_string":"Deptment of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014788373","display_name":"Ion M\u0103ndoiu","orcid":"https://orcid.org/0000-0002-4818-0237"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ion Mandoiu","raw_affiliation_strings":["Department of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","Deptment of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]},{"raw_affiliation_string":"Deptment of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009449784","display_name":"Adrian Caciula","orcid":null},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Adrian Caciula","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA, USA","Department of Computer Science , Georgia State University , Atlanta, GA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"Department of Computer Science , Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072751459","display_name":"Alex Zelikovsky","orcid":"https://orcid.org/0000-0003-4424-4691"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alex Zelikovsky","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA, USA","Department of Computer Science , Georgia State University , Atlanta, GA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"Department of Computer Science , Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056793831","display_name":"Dumitru Brinza","orcid":null},"institutions":[{"id":"https://openalex.org/I4210100234","display_name":"Life Systems (United States)","ror":"https://ror.org/010d6p438","country_code":"US","type":"company","lineage":["https://openalex.org/I4210100234"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dumitru Brinza","raw_affiliation_strings":["Ion Bioinformatics, Life Technologies Corporation, Foster, CA, USA","Ion Bioinf., Life Technol. Corp., Foster City, CA, USA"],"affiliations":[{"raw_affiliation_string":"Ion Bioinformatics, Life Technologies Corporation, Foster, CA, USA","institution_ids":["https://openalex.org/I4210100234"]},{"raw_affiliation_string":"Ion Bioinf., Life Technol. Corp., Foster City, CA, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5017101305"],"corresponding_institution_ids":["https://openalex.org/I161318765"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.10378317,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"1"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9994999766349792,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/transcriptome","display_name":"Transcriptome","score":0.8363329172134399},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.5759683847427368},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5748407244682312},{"id":"https://openalex.org/keywords/ion-semiconductor-sequencing","display_name":"Ion semiconductor sequencing","score":0.5017423629760742},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.4804196357727051},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.43136873841285706},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30095362663269043},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20907118916511536},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.174836665391922},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.16577976942062378},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.150540292263031}],"concepts":[{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.8363329172134399},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.5759683847427368},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5748407244682312},{"id":"https://openalex.org/C164928082","wikidata":"https://www.wikidata.org/wiki/Q6063435","display_name":"Ion semiconductor sequencing","level":4,"score":0.5017423629760742},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.4804196357727051},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43136873841285706},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30095362663269043},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20907118916511536},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.174836665391922},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.16577976942062378},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.150540292263031}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/iccabs.2013.6629235","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2013.6629235","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE 3rd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2","score":0.4699999988079071}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W107998980","https://openalex.org/W162544871","https://openalex.org/W1493192698","https://openalex.org/W1630159328","https://openalex.org/W1981509058","https://openalex.org/W1988245212","https://openalex.org/W1988929438","https://openalex.org/W1999574084","https://openalex.org/W2000875411","https://openalex.org/W2010637767","https://openalex.org/W2012016911","https://openalex.org/W2030646320","https://openalex.org/W2034355012","https://openalex.org/W2038230536","https://openalex.org/W2055770801","https://openalex.org/W2069254821","https://openalex.org/W2093253451","https://openalex.org/W2097065948","https://openalex.org/W2098832713","https://openalex.org/W2102813686","https://openalex.org/W2107564978","https://openalex.org/W2112232553","https://openalex.org/W2112888168","https://openalex.org/W2113312463","https://openalex.org/W2119862467","https://openalex.org/W2121547736","https://openalex.org/W2122690812","https://openalex.org/W2122789575","https://openalex.org/W2126419817","https://openalex.org/W2126766730","https://openalex.org/W2133090587","https://openalex.org/W2135046866","https://openalex.org/W2138773756","https://openalex.org/W2141458291","https://openalex.org/W2150901760","https://openalex.org/W2154431984","https://openalex.org/W2155804510","https://openalex.org/W2159322582","https://openalex.org/W2160164696","https://openalex.org/W2165243615"],"related_works":["https://openalex.org/W4394359997","https://openalex.org/W4362511652","https://openalex.org/W4362511917","https://openalex.org/W4362511922","https://openalex.org/W4362485688","https://openalex.org/W4362530184","https://openalex.org/W4362530193","https://openalex.org/W2904597490","https://openalex.org/W4362485661","https://openalex.org/W4394365953"],"abstract_inverted_index":{"We":[0],"propose":[1],"novel":[2,13],"method":[3],"for":[4],"transcriptome":[5],"reconstruction":[6],"and":[7,12],"quantitation":[8],"of":[9],"both":[10],"known":[11],"transcripts":[14],"from":[15],"Ion":[16],"Torrent":[17],"RNA-Seq":[18],"reads.":[19]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
