{"id":"https://openalex.org/W2619892465","doi":"https://doi.org/10.1007/978-3-319-59575-7_7","title":"IsoTree: De Novo Transcriptome Assembly from RNA-Seq Reads","display_name":"IsoTree: De Novo Transcriptome Assembly from RNA-Seq Reads","publication_year":2017,"publication_date":"2017-01-01","ids":{"openalex":"https://openalex.org/W2619892465","doi":"https://doi.org/10.1007/978-3-319-59575-7_7","mag":"2619892465"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-319-59575-7_7","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-319-59575-7_7","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"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":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"conference-paper","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/A5101492999","display_name":"Jin Zhao","orcid":"https://orcid.org/0000-0003-2229-0451"},"institutions":[{"id":"https://openalex.org/I154099455","display_name":"Shandong University","ror":"https://ror.org/0207yh398","country_code":"CN","type":"education","lineage":["https://openalex.org/I154099455"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jin Zhao","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University, Shun Hua Road, 250101, Jinan, Shandong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University, Shun Hua Road, 250101, Jinan, Shandong, China","institution_ids":["https://openalex.org/I154099455"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101498861","display_name":"Haodi Feng","orcid":"https://orcid.org/0000-0002-0656-5905"},"institutions":[{"id":"https://openalex.org/I154099455","display_name":"Shandong University","ror":"https://ror.org/0207yh398","country_code":"CN","type":"education","lineage":["https://openalex.org/I154099455"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Haodi Feng","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University, Shun Hua Road, 250101, Jinan, Shandong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University, Shun Hua Road, 250101, Jinan, Shandong, China","institution_ids":["https://openalex.org/I154099455"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101769221","display_name":"Daming Zhu","orcid":"https://orcid.org/0000-0001-9395-7247"},"institutions":[{"id":"https://openalex.org/I154099455","display_name":"Shandong University","ror":"https://ror.org/0207yh398","country_code":"CN","type":"education","lineage":["https://openalex.org/I154099455"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Daming Zhu","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University, Shun Hua Road, 250101, Jinan, Shandong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University, Shun Hua Road, 250101, Jinan, Shandong, China","institution_ids":["https://openalex.org/I154099455"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100458161","display_name":"Chi Zhang","orcid":"https://orcid.org/0000-0002-1827-8137"},"institutions":[{"id":"https://openalex.org/I4210119109","display_name":"Indiana University Bloomington","ror":"https://ror.org/02k40bc56","country_code":"US","type":"education","lineage":["https://openalex.org/I4210119109","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chi Zhang","raw_affiliation_strings":["Department of Medical and Molecular Genetics, Indiana University, Bloomington, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical and Molecular Genetics, Indiana University, Bloomington, USA","institution_ids":["https://openalex.org/I4210119109"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5020171946","display_name":"Ying Xu","orcid":"https://orcid.org/0000-0002-7856-3343"},"institutions":[{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ying Xu","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Georgia, Athens, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Georgia, Athens, USA","institution_ids":["https://openalex.org/I165733156"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5101498861"],"corresponding_institution_ids":["https://openalex.org/I154099455"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":2.7004,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.88397503,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"71","last_page":"83"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"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":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991000294685364,"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":0.9983999729156494,"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/de-bruijn-graph","display_name":"De Bruijn graph","score":0.7343625426292419},{"id":"https://openalex.org/keywords/de-novo-transcriptome-assembly","display_name":"De novo transcriptome assembly","score":0.6864720582962036},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6600217223167419},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.6260346174240112},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5141511559486389},{"id":"https://openalex.org/keywords/substring","display_name":"Substring","score":0.5029477477073669},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.44539785385131836},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4251896142959595},{"id":"https://openalex.org/keywords/splice","display_name":"splice","score":0.4232638478279114},{"id":"https://openalex.org/keywords/alternative-splicing","display_name":"Alternative splicing","score":0.4122893512248993},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33785778284072876},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3104550838470459},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.290555864572525},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.26582223176956177},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2602543234825134},{"id":"https://openalex.org/keywords/exon","display_name":"Exon","score":0.23720353841781616},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.23418766260147095},{"id":"https://openalex.org/keywords/data-structure","display_name":"Data structure","score":0.16004514694213867}],"concepts":[{"id":"https://openalex.org/C20218877","wikidata":"https://www.wikidata.org/wiki/Q3066095","display_name":"De Bruijn graph","level":3,"score":0.7343625426292419},{"id":"https://openalex.org/C50489715","wikidata":"https://www.wikidata.org/wiki/Q5244960","display_name":"De novo transcriptome assembly","level":5,"score":0.6864720582962036},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6600217223167419},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.6260346174240112},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5141511559486389},{"id":"https://openalex.org/C182407805","wikidata":"https://www.wikidata.org/wiki/Q2626534","display_name":"Substring","level":3,"score":0.5029477477073669},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.44539785385131836},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4251896142959595},{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.4232638478279114},{"id":"https://openalex.org/C194583182","wikidata":"https://www.wikidata.org/wiki/Q21114084","display_name":"Alternative splicing","level":4,"score":0.4122893512248993},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33785778284072876},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3104550838470459},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.290555864572525},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.26582223176956177},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2602543234825134},{"id":"https://openalex.org/C36823959","wikidata":"https://www.wikidata.org/wiki/Q373027","display_name":"Exon","level":3,"score":0.23720353841781616},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.23418766260147095},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.16004514694213867},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/978-3-319-59575-7_7","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-319-59575-7_7","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"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":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.4000000059604645,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W1883773314","https://openalex.org/W1966822396","https://openalex.org/W1988245212","https://openalex.org/W2000875411","https://openalex.org/W2011565693","https://openalex.org/W2038230536","https://openalex.org/W2040481343","https://openalex.org/W2045131720","https://openalex.org/W2053057991","https://openalex.org/W2096441981","https://openalex.org/W2097065948","https://openalex.org/W2102813686","https://openalex.org/W2104005232","https://openalex.org/W2105371278","https://openalex.org/W2122789575","https://openalex.org/W2126419817","https://openalex.org/W2126766730","https://openalex.org/W2140729960","https://openalex.org/W2141458291","https://openalex.org/W2142678478","https://openalex.org/W2143447881","https://openalex.org/W2155804510","https://openalex.org/W2156841387","https://openalex.org/W2160969485","https://openalex.org/W2166558929","https://openalex.org/W2169456326","https://openalex.org/W2255292617","https://openalex.org/W2276982311","https://openalex.org/W2519019984"],"related_works":["https://openalex.org/W1021674602","https://openalex.org/W4233434584","https://openalex.org/W2049364822","https://openalex.org/W2167719367","https://openalex.org/W3157557088","https://openalex.org/W4206729893","https://openalex.org/W2048783574","https://openalex.org/W2359778323","https://openalex.org/W2926358864","https://openalex.org/W3216228911"],"abstract_inverted_index":null,"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1}],"updated_date":"2026-08-04T08:18:43.703281","created_date":"2025-10-10T00:00:00"}
