{"id":"https://openalex.org/W3134765669","doi":"https://doi.org/10.1093/bioinformatics/btab142","title":"ASimulatoR: splice-aware RNA-Seq data simulation","display_name":"ASimulatoR: splice-aware RNA-Seq data simulation","publication_year":2021,"publication_date":"2021-02-25","ids":{"openalex":"https://openalex.org/W3134765669","doi":"https://doi.org/10.1093/bioinformatics/btab142","mag":"3134765669","pmid":"https://pubmed.ncbi.nlm.nih.gov/33647976"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab142","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab142","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070666169","display_name":"Quirin Manz","orcid":"https://orcid.org/0000-0002-5706-2718"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Quirin Manz","raw_affiliation_strings":["Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany"],"affiliations":[{"raw_affiliation_string":"Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065212442","display_name":"Olga Tsoy","orcid":"https://orcid.org/0000-0002-7592-2080"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Olga Tsoy","raw_affiliation_strings":["Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany"],"affiliations":[{"raw_affiliation_string":"Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090219030","display_name":"Amit Fenn","orcid":"https://orcid.org/0000-0003-2203-3922"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Amit Fenn","raw_affiliation_strings":["Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany"],"affiliations":[{"raw_affiliation_string":"Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073222532","display_name":"Jan Baumbach","orcid":"https://orcid.org/0000-0002-0282-0462"},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]},{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DE","DK"],"is_corresponding":false,"raw_author_name":"Jan Baumbach","raw_affiliation_strings":["Chair of Computational Systems Biology, University of Hamburg , 22607 Hamburg, Germany","Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","Department of Mathematics and Computer Science, University of Southern Denmark , 5230 Odense, Denmark"],"affiliations":[{"raw_affiliation_string":"Chair of Computational Systems Biology, University of Hamburg , 22607 Hamburg, Germany","institution_ids":["https://openalex.org/I159176309"]},{"raw_affiliation_string":"Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of Southern Denmark , 5230 Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085667735","display_name":"Uwe V\u00f6lker","orcid":"https://orcid.org/0000-0002-5689-3448"},"institutions":[{"id":"https://openalex.org/I2799318839","display_name":"Universit\u00e4tsmedizin Greifswald","ror":"https://ror.org/025vngs54","country_code":"DE","type":"education","lineage":["https://openalex.org/I2799318839"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Uwe V\u00f6lker","raw_affiliation_strings":["Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald , 17475 Greifswald, Germany"],"affiliations":[{"raw_affiliation_string":"Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald , 17475 Greifswald, Germany","institution_ids":["https://openalex.org/I2799318839"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035928806","display_name":"Markus List","orcid":null},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Markus List","raw_affiliation_strings":["Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany"],"affiliations":[{"raw_affiliation_string":"Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072736528","display_name":"Tim Kacprowski","orcid":"https://orcid.org/0000-0002-5393-2413"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]},{"id":"https://openalex.org/I34809795","display_name":"Medizinische Hochschule Hannover","ror":"https://ror.org/00f2yqf98","country_code":"DE","type":"education","lineage":["https://openalex.org/I34809795"]},{"id":"https://openalex.org/I94509681","display_name":"Technische Universit\u00e4t Braunschweig","ror":"https://ror.org/010nsgg66","country_code":"DE","type":"education","lineage":["https://openalex.org/I94509681"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Tim Kacprowski","raw_affiliation_strings":["Braunschweig Integrated Centre of Systems Biology (BRICS) , 38106 Braunschweig, Germany","Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","Division Data Science in Biomedicine, Peter L. Reichertz Institute for Medical Informatics, TU Braunschweig and Hannover Medical School , 38106 Brunswick, Germany"],"affiliations":[{"raw_affiliation_string":"Braunschweig Integrated Centre of Systems Biology (BRICS) , 38106 Braunschweig, Germany","institution_ids":[]},{"raw_affiliation_string":"Chair of Experimental Bioinformatics, TUM School of Life Sciences Weihenstephan, Technical University of Munich , 85354 Freising, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Division Data Science in Biomedicine, Peter L. Reichertz Institute for Medical Informatics, TU Braunschweig and Hannover Medical School , 38106 Brunswick, Germany","institution_ids":["https://openalex.org/I34809795","https://openalex.org/I94509681"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5035928806","https://openalex.org/A5072736528"],"corresponding_institution_ids":["https://openalex.org/I34809795","https://openalex.org/I62916508","https://openalex.org/I94509681"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.1347,"has_fulltext":false,"cited_by_count":17,"citation_normalized_percentile":{"value":0.76976363,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"37","issue":"18","first_page":"3008","last_page":"3010"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","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"}},"topics":[{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","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"}},{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9947999715805054,"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/rna-seq","display_name":"RNA-Seq","score":0.7728420495986938},{"id":"https://openalex.org/keywords/splice","display_name":"splice","score":0.6917808651924133},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.683570921421051},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.4780460000038147},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4618164300918579},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4557466506958008},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.38834142684936523},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.21507498621940613},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1904221475124359},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.14956119656562805},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1355675756931305},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10970547795295715}],"concepts":[{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.7728420495986938},{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.6917808651924133},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.683570921421051},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.4780460000038147},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4618164300918579},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4557466506958008},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.38834142684936523},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.21507498621940613},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1904221475124359},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.14956119656562805},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1355675756931305},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10970547795295715},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"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":"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":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab142","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab142","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33647976","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33647976","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:sdu.dk:openaire_cris_publications/b5654fae-2b18-4767-9737-fa9ab5fb1e6b","is_oa":false,"landing_page_url":"https://portal.findresearcher.sdu.dk/da/publications/b5654fae-2b18-4767-9737-fa9ab5fb1e6b","pdf_url":null,"source":{"id":"https://openalex.org/S4306400423","display_name":"University of Southern Denmark Research Portal (University of Southern Denmark)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I177969490","host_organization_name":"University of Southern Denmark","host_organization_lineage":["https://openalex.org/I177969490"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Manz, Q, Tsoy, O, Fenn, A, Baumbach, J, V\u00f6lker, U, List, M & Kacprowski, T 2021, 'ASimulatoR : splice-aware RNA-Seq data simulation', Bioinformatics, vol. 37, no. 18, pp. 3008\u20133010. https://doi.org/10.1093/bioinformatics/btab142","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2387072340","display_name":null,"funder_award_id":"SFB 1371","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8235906861","display_name":null,"funder_award_id":"395357507","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W1652280537","https://openalex.org/W2013990566","https://openalex.org/W2096173343","https://openalex.org/W2112876600","https://openalex.org/W2131014997","https://openalex.org/W2169456326","https://openalex.org/W2267092331","https://openalex.org/W2795309208","https://openalex.org/W2951189966","https://openalex.org/W3102165426","https://openalex.org/W6749929919"],"related_works":["https://openalex.org/W2029220916","https://openalex.org/W1943031701","https://openalex.org/W3129862691","https://openalex.org/W1993348797","https://openalex.org/W3006402873","https://openalex.org/W2887346131","https://openalex.org/W4409838397","https://openalex.org/W2008832338","https://openalex.org/W2014791263","https://openalex.org/W205431209"],"abstract_inverted_index":{"ASimulatoR":[0],"is":[1],"freely":[2],"available":[3],"at":[4],"https://github.com/biomedbigdata/ASimulatoR":[5],"as":[6],"an":[7],"R":[8],"package":[9],"under":[10],"GPL-3":[11],"license.":[12]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":5}],"updated_date":"2026-03-05T09:29:38.588285","created_date":"2025-10-10T00:00:00"}
