{"id":"https://openalex.org/W2345371111","doi":"https://doi.org/10.1093/bioinformatics/btw231","title":"DOGMA: domain-based transcriptome and proteome quality assessment","display_name":"DOGMA: domain-based transcriptome and proteome quality assessment","publication_year":2016,"publication_date":"2016-05-05","ids":{"openalex":"https://openalex.org/W2345371111","doi":"https://doi.org/10.1093/bioinformatics/btw231","mag":"2345371111","pmid":"https://pubmed.ncbi.nlm.nih.gov/27153665"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw231","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw231","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2577/17345885/btw231.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2577/17345885/btw231.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075803222","display_name":"Elias Dohmen","orcid":"https://orcid.org/0000-0002-7203-2314"},"institutions":[{"id":"https://openalex.org/I22465464","display_name":"University of M\u00fcnster","ror":"https://ror.org/00pd74e08","country_code":"DE","type":"education","lineage":["https://openalex.org/I22465464"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Elias Dohmen","raw_affiliation_strings":["1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany","2 Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, Recklinghausen 45665, Germany","Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, Recklinghausen 45665, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany","institution_ids":["https://openalex.org/I22465464"]},{"raw_affiliation_string":"2 Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, Recklinghausen 45665, Germany","institution_ids":[]},{"raw_affiliation_string":"Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, Recklinghausen 45665, Germany","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085633103","display_name":"Lukas P. M. Kremer","orcid":"https://orcid.org/0000-0003-3170-6295"},"institutions":[{"id":"https://openalex.org/I22465464","display_name":"University of M\u00fcnster","ror":"https://ror.org/00pd74e08","country_code":"DE","type":"education","lineage":["https://openalex.org/I22465464"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Lukas P.M. Kremer","raw_affiliation_strings":["1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany","institution_ids":["https://openalex.org/I22465464"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072841736","display_name":"Erich Bornberg\u2010Bauer","orcid":"https://orcid.org/0000-0002-1826-3576"},"institutions":[{"id":"https://openalex.org/I22465464","display_name":"University of M\u00fcnster","ror":"https://ror.org/00pd74e08","country_code":"DE","type":"education","lineage":["https://openalex.org/I22465464"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Erich Bornberg-Bauer","raw_affiliation_strings":["1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany","institution_ids":["https://openalex.org/I22465464"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075543102","display_name":"Carsten Kemena","orcid":"https://orcid.org/0000-0002-2416-9842"},"institutions":[{"id":"https://openalex.org/I22465464","display_name":"University of M\u00fcnster","ror":"https://ror.org/00pd74e08","country_code":"DE","type":"education","lineage":["https://openalex.org/I22465464"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Carsten Kemena","raw_affiliation_strings":["1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Institute for Evolution and Biodiversity, University of M\u00fcnster, M\u00fcnster 48149, Germany","institution_ids":["https://openalex.org/I22465464"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5075543102","https://openalex.org/A5075803222"],"corresponding_institution_ids":["https://openalex.org/I22465464"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.4395,"has_fulltext":false,"cited_by_count":61,"citation_normalized_percentile":{"value":0.8746304,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"32","issue":"17","first_page":"2577","last_page":"2581"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.3003000020980835,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.3003000020980835,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.23589999973773956,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.04899999871850014,"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/transcriptome","display_name":"Transcriptome","score":0.8029807806015015},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.6951655149459839},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.6338111758232117},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.6067838072776794},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5990839004516602},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.573737621307373},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.32604172825813293},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.26741713285446167},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16646069288253784},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14749294519424438},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.12342745065689087},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08039608597755432}],"concepts":[{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.8029807806015015},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.6951655149459839},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.6338111758232117},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.6067838072776794},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5990839004516602},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.573737621307373},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.32604172825813293},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.26741713285446167},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16646069288253784},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14749294519424438},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.12342745065689087},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08039608597755432},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"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":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btw231","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw231","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2577/17345885/btw231.pdf","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:27153665","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27153665","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:open-archive.highwire.org:bioinfo:32/17/2577","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/17/2577","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw231","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw231","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2577/17345885/btw231.pdf","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"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.4300000071525574}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W80140380","https://openalex.org/W1485087568","https://openalex.org/W1580446594","https://openalex.org/W1990056477","https://openalex.org/W2009505131","https://openalex.org/W2038184529","https://openalex.org/W2051210555","https://openalex.org/W2076502650","https://openalex.org/W2098531465","https://openalex.org/W2099946731","https://openalex.org/W2101786683","https://openalex.org/W2107772251","https://openalex.org/W2110332627","https://openalex.org/W2122576958","https://openalex.org/W2123638624","https://openalex.org/W2128774397","https://openalex.org/W2130581715","https://openalex.org/W2133793243","https://openalex.org/W2136826997","https://openalex.org/W2138459937","https://openalex.org/W2145155821","https://openalex.org/W2147526198","https://openalex.org/W2155606054","https://openalex.org/W2155628349","https://openalex.org/W2156372459","https://openalex.org/W2170324950","https://openalex.org/W4230266413"],"related_works":["https://openalex.org/W4321437894","https://openalex.org/W2806166617","https://openalex.org/W2030680494","https://openalex.org/W2939973050","https://openalex.org/W4235011756","https://openalex.org/W2316833920","https://openalex.org/W4377098514","https://openalex.org/W1975345997","https://openalex.org/W4387564043","https://openalex.org/W2290118617"],"abstract_inverted_index":{"MOTIVATION:":[0],"Genome":[1],"studies":[2],"have":[3],"become":[4],"cheaper":[5],"and":[6,19,43,60,66,84,113],"easier":[7],"than":[8],"ever":[9],"before,":[10],"due":[11],"to":[12,99],"the":[13,20,27,76],"decreased":[14],"costs":[15],"of":[16,23,29,41,48,64,78],"high-throughput":[17],"sequencing":[18],"free":[21],"availability":[22],"analysis":[24,50],"software.":[25],"However,":[26],"quality":[28,39,62,101],"genome":[30,49],"or":[31,82,129],"transcriptome":[32,65,81],"assemblies":[33,42],"can":[34],"vary":[35],"a":[36,56,79,95],"lot.":[37],"Therefore,":[38],"assessment":[40,63,102],"annotations":[44],"are":[45,135],"crucial":[46],"aspects":[47],"pipelines.":[51],"RESULTS:":[52],"We":[53],"developed":[54],"DOGMA,":[55],"program":[57],"for":[58,90],"fast":[59,97],"easy":[61],"proteome":[67,83],"data":[68,134],"based":[69],"on":[70,125],"conserved":[71],"protein":[72],"domains.":[73],"DOGMA":[74,93,108],"measures":[75],"completeness":[77],"given":[80],"provides":[85,94],"information":[86],"about":[87],"domain":[88],"content":[89],"further":[91],"analysis.":[92],"very":[96],"way":[98],"do":[100],"within":[103],"seconds.":[104],"AVAILABILITY":[105],"AND":[106],"IMPLEMENTATION:":[107],"is":[109,123],"implemented":[110],"in":[111],"Python":[112],"published":[114],"under":[115],"GNU":[116],"GPL":[117],"v.3":[118],"license.":[119],"The":[120],"source":[121],"code":[122],"available":[124,136],"https://ebbgit.uni-muenster.de/domainWorld/DOGMA/":[126],"CONTACTS:":[127],"e.dohmen@wwu.de":[128],"c.kemena@wwu.de":[130],"SUPPLEMENTARY":[131],"INFORMATION:":[132],"Supplementary":[133],"at":[137],"Bioinformatics":[138],"online.":[139]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":18},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
