{"id":"https://openalex.org/W185056222","doi":null,"title":"Determining differential expression of Splice Variants in RNA-seq","display_name":"Determining differential expression of Splice Variants in RNA-seq","publication_year":2012,"publication_date":"2012-10-25","ids":{"openalex":"https://openalex.org/W185056222","mag":"185056222"},"language":"en","primary_location":{"id":"pmh:oai:dspace.library.uu.nl:1874/256467","doi":null,"is_oa":true,"landing_page_url":"http://dspace.library.uu.nl:8080/handle/1874/256467","pdf_url":null,"source":{"id":"https://openalex.org/S4306401649","display_name":"Utrecht University Repository (Utrecht University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I193662353","host_organization_name":"Utrecht University","host_organization_lineage":["https://openalex.org/I193662353"],"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":"","raw_type":"Master thesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://dspace.library.uu.nl:8080/handle/1874/256467","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5045472484","display_name":"Ward Weistra","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Ward Weistra","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5045472484"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.7128999829292297,"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":0.7128999829292297,"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/T10604","display_name":"RNA Research and Splicing","score":0.20679999887943268,"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/T10885","display_name":"Gene expression and cancer classification","score":0.04490000009536743,"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/differential-gene-expression","display_name":"differential gene expression","score":0.7749999761581421},{"id":"https://openalex.org/keywords/splice-variants","display_name":"splice variants","score":0.8659999966621399},{"id":"https://openalex.org/keywords/alternative-splicing","display_name":"alternative splicing","score":0.9750000238418579},{"id":"https://openalex.org/keywords/rna-seq-data-analysis","display_name":"RNA-seq data analysis","score":0.7839999794960022},{"id":"https://openalex.org/keywords/rna-seq-normalization","display_name":"RNA-seq normalization","score":0.718999981880188},{"id":"https://openalex.org/keywords/reference-genome","display_name":"reference genome","score":0.6150000095367432}],"concepts":[{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.7650138139724731},{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.7137625813484192},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5506227016448975},{"id":"https://openalex.org/C93226319","wikidata":"https://www.wikidata.org/wiki/Q193137","display_name":"Differential (mechanical device)","level":2,"score":0.47721415758132935},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.4503166675567627},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.44070878624916077},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.43229952454566956},{"id":"https://openalex.org/C194583182","wikidata":"https://www.wikidata.org/wiki/Q21114084","display_name":"Alternative splicing","level":4,"score":0.42494815587997437},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.42425522208213806},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4058612585067749},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.33178946375846863},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.28347814083099365},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.26377126574516296},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1848103404045105},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1639118790626526},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.14077550172805786},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:dspace.library.uu.nl:1874/256467","doi":null,"is_oa":true,"landing_page_url":"http://dspace.library.uu.nl:8080/handle/1874/256467","pdf_url":null,"source":{"id":"https://openalex.org/S4306401649","display_name":"Utrecht University Repository (Utrecht University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I193662353","host_organization_name":"Utrecht University","host_organization_lineage":["https://openalex.org/I193662353"],"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":"","raw_type":"Master thesis"},{"id":"mag:185056222","doi":null,"is_oa":false,"landing_page_url":"https://dspace.library.uu.nl/bitstream/handle/1874/256467/Weistra%20-%202012%20-%20Differential%20expression%20of%20splice%20variants.pdf;sequence=1","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:dspace.library.uu.nl:1874/256467","doi":null,"is_oa":true,"landing_page_url":"http://dspace.library.uu.nl:8080/handle/1874/256467","pdf_url":null,"source":{"id":"https://openalex.org/S4306401649","display_name":"Utrecht University Repository (Utrecht University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I193662353","host_organization_name":"Utrecht University","host_organization_lineage":["https://openalex.org/I193662353"],"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":"","raw_type":"Master thesis"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W1575879600","https://openalex.org/W1972309199","https://openalex.org/W1981509058","https://openalex.org/W1999574084","https://openalex.org/W2000875411","https://openalex.org/W2009329319","https://openalex.org/W2011411346","https://openalex.org/W2011920499","https://openalex.org/W2024976844","https://openalex.org/W2055770801","https://openalex.org/W2061537056","https://openalex.org/W2066602691","https://openalex.org/W2074330027","https://openalex.org/W2087064593","https://openalex.org/W2093253451","https://openalex.org/W2093931624","https://openalex.org/W2096173343","https://openalex.org/W2096441981","https://openalex.org/W2097065948","https://openalex.org/W2100305481","https://openalex.org/W2100448568","https://openalex.org/W2101466802","https://openalex.org/W2107564978","https://openalex.org/W2109936378","https://openalex.org/W2111769691","https://openalex.org/W2112888168","https://openalex.org/W2118189700","https://openalex.org/W2119204091","https://openalex.org/W2120293208","https://openalex.org/W2122789575","https://openalex.org/W2126144698","https://openalex.org/W2129916363","https://openalex.org/W2138773756","https://openalex.org/W2141458291","https://openalex.org/W2151081606","https://openalex.org/W2152239989","https://openalex.org/W2155684118","https://openalex.org/W2156631105","https://openalex.org/W2160164696","https://openalex.org/W2187503591","https://openalex.org/W2340149117"],"related_works":["https://openalex.org/W2118874738","https://openalex.org/W94679499","https://openalex.org/W2981627692","https://openalex.org/W4410892061","https://openalex.org/W1536677592","https://openalex.org/W2157770058","https://openalex.org/W7077239089","https://openalex.org/W4415924794","https://openalex.org/W4323048959","https://openalex.org/W7077236587"],"abstract_inverted_index":{"To":[0],"determine":[1],"differential":[2,94,117],"expression":[3,95,118],"between":[4],"different":[5,7,10],"genes,":[6],"samples":[8],"and":[9,23,83],"experiments":[11],"quantified":[12],"data":[13,92],"should":[14],"be":[15],"normalized":[16],"using":[17],"a":[18,103],"uniform":[19],"method.":[20],"Many":[21],"protocols":[22],"algorithms":[24],"have":[25,102,111],"been":[26,112],"developed":[27],"over":[28],"the":[29,37,54,65,81,87,116,128,138],"last":[30],"years":[31,108],"to":[32,70,136],"analyze":[33],"RNA-seq":[34,51,91],"data,":[35],"although":[36],"field":[38],"is":[39,53],"still":[40],"in":[41,50,86,114],"its":[42],"early":[43],"days":[44],"of":[45,56,67,80,96,119,127],"standardization.":[46],"A":[47],"complicating":[48],"factor":[49],"analysis":[52,129],"existence":[55],"genes":[57],"with":[58],"multiple":[59],"splice":[60,97],"variants.":[61],"These":[62],"variants":[63,98],"complicate":[64],"task":[66],"assigning":[68],"reads":[69],"unique":[71],"transcripts.\\nIn":[72],"this":[73],"thesis":[74],"we":[75],"will":[76],"give":[77],"an":[78],"overview":[79],"tools":[82,134],"methods":[84],"available":[85,135],"literature":[88],"for":[89,99],"analyzing":[90,115],"including":[93],"organisms":[100],"that":[101],"reference":[104],"genome.":[105],"In":[106],"recent":[107],"great":[109],"advances":[110],"made":[113],"alternatively":[120],"spliced":[121],"transcripts.":[122],"For":[123],"all":[124],"four":[125],"steps":[126],"path":[130],"there":[131],"are":[132],"suitable":[133],"address":[137],"problems":[139],"alternative":[140],"splicing":[141],"causes.":[142]},"counts_by_year":[],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}