{"id":"https://openalex.org/W2076186660","doi":"https://doi.org/10.1186/1471-2105-14-9","title":"MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis","display_name":"MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis","publication_year":2013,"publication_date":"2013-01-16","ids":{"openalex":"https://openalex.org/W2076186660","doi":"https://doi.org/10.1186/1471-2105-14-9","mag":"2076186660","pmid":"https://pubmed.ncbi.nlm.nih.gov/23323883"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006496313","display_name":"Kjetil Klepper","orcid":null},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"Kjetil Klepper","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway. kjetil.klepper@ntnu.no","Department of Cancer Research and Molecular Medicine; Norwegian University of Science and Technology; Trondheim Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway. kjetil.klepper@ntnu.no","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine; Norwegian University of Science and Technology; Trondheim Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015108785","display_name":"Finn Drabl\u00f8s","orcid":"https://orcid.org/0000-0001-5794-828X"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"Finn Drabl\u00f8s","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway","Department of Cancer Research and Molecular Medicine; Norwegian University of Science and Technology; Trondheim Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine; Norwegian University of Science and Technology; Trondheim Norway","institution_ids":["https://openalex.org/I204778367"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5006496313","https://openalex.org/A5015108785"],"corresponding_institution_ids":["https://openalex.org/I204778367"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":3.4411,"has_fulltext":true,"cited_by_count":31,"citation_normalized_percentile":{"value":0.93094994,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"14","issue":"1","first_page":"9","last_page":"9"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9817000031471252,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9817000031471252,"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":0.0027000000700354576,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.0020000000949949026,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/motif","display_name":"Motif (music)","score":0.7056275606155396},{"id":"https://openalex.org/keywords/workbench","display_name":"Workbench","score":0.6913416385650635},{"id":"https://openalex.org/keywords/sequence-motif","display_name":"Sequence motif","score":0.6096805334091187},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5794029235839844},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5776591300964355},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.5226325988769531},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5221405625343323},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.513775646686554},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.46896448731422424},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.43136265873908997},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.37854501605033875},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.3776065707206726},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.34022700786590576},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3348088264465332},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.3141251504421234},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2637564241886139},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.23699069023132324},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.22453397512435913},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.1475689709186554},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.1230597198009491}],"concepts":[{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.7056275606155396},{"id":"https://openalex.org/C2779145975","wikidata":"https://www.wikidata.org/wiki/Q347690","display_name":"Workbench","level":3,"score":0.6913416385650635},{"id":"https://openalex.org/C117745874","wikidata":"https://www.wikidata.org/wiki/Q901612","display_name":"Sequence motif","level":3,"score":0.6096805334091187},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5794029235839844},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5776591300964355},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.5226325988769531},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5221405625343323},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.513775646686554},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.46896448731422424},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.43136265873908997},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37854501605033875},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.3776065707206726},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.34022700786590576},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3348088264465332},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.3141251504421234},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2637564241886139},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.23699069023132324},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.22453397512435913},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.1475689709186554},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.1230597198009491},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005576","descriptor_name":"Colforsin","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D005576","descriptor_name":"Colforsin","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D005576","descriptor_name":"Colforsin","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D050436","descriptor_name":"Regulatory Elements, Transcriptional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D050436","descriptor_name":"Regulatory Elements, Transcriptional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D050436","descriptor_name":"Regulatory Elements, Transcriptional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-14-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23323883","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23323883","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:brage.bibsys.no:11250/2366740","is_oa":true,"landing_page_url":"http://hdl.handle.net/11250/2366740","pdf_url":null,"source":{"id":"https://openalex.org/S4306400255","display_name":"BIBSYS Brage (BIBSYS (Norway))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I173212132","host_organization_name":"Vilnius University","host_organization_lineage":["https://openalex.org/I173212132"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Journal article"},{"id":"pmh:oai:doaj.org/article:73621d633a254dfd84c71a963f804d48","is_oa":false,"landing_page_url":"https://doaj.org/article/73621d633a254dfd84c71a963f804d48","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"BMC Bioinformatics, Vol 14, Iss 1, p 9 (2013)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2562039","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3556059","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-14-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6100000143051147,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320323299","display_name":"Norges Forskningsr\u00e5d","ror":"https://ror.org/00epmv149"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2076186660.pdf","grobid_xml":"https://content.openalex.org/works/W2076186660.grobid-xml"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W1592870802","https://openalex.org/W1870365463","https://openalex.org/W1966448776","https://openalex.org/W1966488259","https://openalex.org/W1973151113","https://openalex.org/W1987122345","https://openalex.org/W1993292687","https://openalex.org/W2002495914","https://openalex.org/W2009291798","https://openalex.org/W2045385554","https://openalex.org/W2063566427","https://openalex.org/W2063732674","https://openalex.org/W2073850887","https://openalex.org/W2077026063","https://openalex.org/W2078034709","https://openalex.org/W2082022155","https://openalex.org/W2094898751","https://openalex.org/W2095791120","https://openalex.org/W2097396311","https://openalex.org/W2099922553","https://openalex.org/W2103882919","https://openalex.org/W2111729969","https://openalex.org/W2116672274","https://openalex.org/W2119678160","https://openalex.org/W2120710794","https://openalex.org/W2121356022","https://openalex.org/W2124807683","https://openalex.org/W2130398729","https://openalex.org/W2135030836","https://openalex.org/W2135243774","https://openalex.org/W2138572581","https://openalex.org/W2139150079","https://openalex.org/W2140952049","https://openalex.org/W2141408320","https://openalex.org/W2142410561","https://openalex.org/W2142570576","https://openalex.org/W2144467296","https://openalex.org/W2147466465","https://openalex.org/W2148014281","https://openalex.org/W2155340806","https://openalex.org/W2158304452","https://openalex.org/W2158962723","https://openalex.org/W2162530919","https://openalex.org/W2163899891","https://openalex.org/W2167827709","https://openalex.org/W2168157737","https://openalex.org/W2259938310","https://openalex.org/W2915607458","https://openalex.org/W2916083703"],"related_works":["https://openalex.org/W2073661767","https://openalex.org/W2380185347","https://openalex.org/W1971216836","https://openalex.org/W2370034659","https://openalex.org/W2159636084","https://openalex.org/W2117168988","https://openalex.org/W2103777723","https://openalex.org/W2610941444","https://openalex.org/W2162836426","https://openalex.org/W2115577355"],"abstract_inverted_index":{"BACKGROUND:":[0],"Traditional":[1],"methods":[2,14],"for":[3,17,103,120,224,253],"computational":[4],"motif":[5,99,137,148,225],"discovery":[6,100,138,149],"often":[7],"suffer":[8],"from":[9],"poor":[10],"performance.":[11],"In":[12,44],"particular,":[13],"that":[15,55,186],"search":[16],"sequence":[18,123],"matches":[19],"to":[20,25,34,59,63,89,144,190,265],"known":[21],"binding":[22,29,68,129,170],"motifs":[23,66,255],"tend":[24],"predict":[26],"many":[27],"non-functional":[28],"sites":[30,130],"because":[31],"they":[32],"fail":[33],"take":[35],"into":[36],"consideration":[37],"the":[38,42,57,213],"biological":[39],"state":[40],"of":[41,53,92,156,172,212,235,262],"cell.":[43],"recent":[45],"years,":[46],"genome-wide":[47],"studies":[48],"have":[49,217],"generated":[50],"a":[51,117,221,228,259],"lot":[52],"data":[54,94,195,251],"has":[56,238],"potential":[58],"improve":[60],"our":[61],"ability":[62],"identify":[64],"functional":[65],"and":[67,76,125,131,139,178,193,197,204,233,256,258],"sites,":[69,166],"such":[70],"as":[71,151,153,220],"information":[72],"about":[73],"chromatin":[74],"accessibility":[75],"epigenetic":[77,162],"states":[78],"in":[79,95,109,227,245],"different":[80,154],"cell":[81],"types.":[82],"However,":[83],"it":[84],"is":[85,270],"not":[86,107],"always":[87],"trivial":[88],"make":[90],"use":[91],"this":[93,236],"combination":[96],"with":[97,267],"existing":[98],"tools,":[101],"especially":[102],"researchers":[104],"who":[105],"are":[106],"skilled":[108],"bioinformatics":[110],"programming.":[111],"RESULTS:":[112],"Here":[113],"we":[114],"present":[115],"MotifLab,":[116,208],"general":[118],"workbench":[119,223,237],"analysing":[121],"regulatory":[122],"regions":[124],"discovering":[126],"transcription":[127,173,175],"factor":[128,176],"cis-regulatory":[132],"modules.":[133],"MotifLab":[134,181,219,269],"supports":[135],"comprehensive":[136],"analysis":[140,199,226],"by":[141],"allowing":[142],"users":[143],"integrate":[145],"several":[146,183],"popular":[147],"tools":[150],"well":[152],"kinds":[155],"additional":[157],"information,":[158],"including":[159,209],"phylogenetic":[160],"conservation,":[161],"marks,":[163],"DNase":[164],"hypersensitive":[165],"ChIP-Seq":[167],"data,":[168],"positional":[169],"preferences":[171],"factors,":[174],"interactions":[177],"gene":[179],"expression.":[180],"offers":[182],"data-processing":[184],"operations":[185],"can":[187,201],"be":[188,202],"used":[189],"create,":[191],"manipulate":[192],"analyse":[194],"objects,":[196],"complete":[198],"workflows":[200],"constructed":[203],"automatically":[205],"executed":[206],"within":[207],"graphical":[210],"presentation":[211],"results.":[214],"CONCLUSIONS:":[215],"We":[216],"developed":[218],"flexible":[222],"genomic":[229],"context.":[230],"The":[231],"flexibility":[232],"effectiveness":[234],"been":[239],"demonstrated":[240],"on":[241],"selected":[242],"test":[243],"cases,":[244],"particular":[246],"two":[247],"previously":[248],"published":[249],"benchmark":[250],"sets":[252],"single":[254],"modules,":[257],"realistic":[260],"example":[261],"genes":[263],"responding":[264],"treatment":[266],"forskolin.":[268],"freely":[271],"available":[272],"at":[273],"http://www.motiflab.org.":[274]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":9},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":5}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
