{"id":"https://openalex.org/W2143550361","doi":"https://doi.org/10.1093/bioinformatics/bth471","title":"DWE: Discriminating Word Enumerator","display_name":"DWE: Discriminating Word Enumerator","publication_year":2004,"publication_date":"2004-08-27","ids":{"openalex":"https://openalex.org/W2143550361","doi":"https://doi.org/10.1093/bioinformatics/bth471","mag":"2143550361","pmid":"https://pubmed.ncbi.nlm.nih.gov/15333453"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bth471","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth471","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/1/31/48961761/bioinformatics_21_1_31.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/21/1/31/48961761/bioinformatics_21_1_31.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003039585","display_name":"Pavel Sumazin","orcid":"https://orcid.org/0000-0002-1215-4977"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pavel Sumazin","raw_affiliation_strings":["Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA. ps@cs.pdx.edu","Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA. ps@cs.pdx.edu","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043571598","display_name":"Gengxin Chen","orcid":"https://orcid.org/0000-0002-6227-7334"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gengxin Chen","raw_affiliation_strings":["Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040617077","display_name":"Naoya Hata","orcid":null},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Naoya Hata","raw_affiliation_strings":["Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065682481","display_name":"Andrew D. Smith","orcid":"https://orcid.org/0000-0002-3337-1970"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew D. Smith","raw_affiliation_strings":["Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA","institution_ids":["https://openalex.org/I2750212522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107252172","display_name":"Theresa Zhang","orcid":null},"institutions":[{"id":"https://openalex.org/I1285764155","display_name":"Merck & Co., Inc., Rahway, NJ, USA (United States)","ror":"https://ror.org/02891sr49","country_code":"US","type":"company","lineage":["https://openalex.org/I1285764155"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Theresa Zhang","raw_affiliation_strings":["Bioinformatics , Merck Research Laboratories , Rahway , NJ 07065 , USA","Bioinformatics, Merck Research Laboratories Rahway, NJ 07065, USA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics , Merck Research Laboratories , Rahway , NJ 07065 , USA","institution_ids":["https://openalex.org/I1285764155"]},{"raw_affiliation_string":"Bioinformatics, Merck Research Laboratories Rahway, NJ 07065, USA#TAB#","institution_ids":["https://openalex.org/I1285764155"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058814283","display_name":"Michael Q. Zhang","orcid":"https://orcid.org/0000-0002-7022-6115"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Q. Zhang","raw_affiliation_strings":["Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cold Spring Harbor Laboratory , 1 Bungtown Road , Cold Spring Harbor , NY 11724 , USA,","institution_ids":["https://openalex.org/I2750212522"]},{"raw_affiliation_string":"Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA","institution_ids":["https://openalex.org/I2750212522"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5003039585"],"corresponding_institution_ids":["https://openalex.org/I2750212522"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":1.8261,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.84429889,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"21","issue":"1","first_page":"31","last_page":"38"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.7472000122070312,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.7472000122070312,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.08100000023841858,"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":0.026799999177455902,"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/promoter","display_name":"Promoter","score":0.7602964639663696},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.7264474034309387},{"id":"https://openalex.org/keywords/enhancer","display_name":"Enhancer","score":0.6845813989639282},{"id":"https://openalex.org/keywords/hepatocyte-nuclear-factors","display_name":"Hepatocyte nuclear factors","score":0.6114180088043213},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5885633230209351},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5845192670822144},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.5307742357254028},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.4786894917488098},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.47855621576309204},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44615110754966736},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.426649808883667}],"concepts":[{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.7602964639663696},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.7264474034309387},{"id":"https://openalex.org/C111936080","wikidata":"https://www.wikidata.org/wiki/Q913367","display_name":"Enhancer","level":4,"score":0.6845813989639282},{"id":"https://openalex.org/C99535661","wikidata":"https://www.wikidata.org/wiki/Q5731779","display_name":"Hepatocyte nuclear factors","level":4,"score":0.6114180088043213},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5885633230209351},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5845192670822144},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.5307742357254028},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.4786894917488098},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.47855621576309204},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44615110754966736},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.426649808883667},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","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":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D008099","descriptor_name":"Liver","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008099","descriptor_name":"Liver","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008099","descriptor_name":"Liver","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"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":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016384","descriptor_name":"Consensus Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016384","descriptor_name":"Consensus Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016384","descriptor_name":"Consensus Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bth471","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth471","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/1/31/48961761/bioinformatics_21_1_31.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:15333453","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15333453","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":"Comparative Study"},{"id":"pmh:oai:repository.cshl.edu:22719","is_oa":false,"landing_page_url":"https://repository.cshl.edu/id/eprint/22719/","pdf_url":null,"source":{"id":"https://openalex.org/S4306402288","display_name":"Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Paper"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.106.5804","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.106.5804","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/cgi/reprint/bth471v1.pdf","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bth471","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth471","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/1/31/48961761/bioinformatics_21_1_31.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":[{"score":0.6899999976158142,"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities"}],"awards":[{"id":"https://openalex.org/G1941437471","display_name":"ITR Collaborative Research:  Combinatorial Algorithms for Biological Data Clustering","funder_award_id":"0324292","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4573230875","display_name":"Postdoctoral Research Fellowship in Interdisciplinary Informatics for FY 2003","funder_award_id":"0306152","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8221530016","display_name":null,"funder_award_id":"GM060513","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2143550361.pdf","grobid_xml":"https://content.openalex.org/works/W2143550361.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W1956090332","https://openalex.org/W1973754133","https://openalex.org/W1980124153","https://openalex.org/W1989791725","https://openalex.org/W1998300401","https://openalex.org/W2002144573","https://openalex.org/W2017309141","https://openalex.org/W2032231928","https://openalex.org/W2032558547","https://openalex.org/W2033314834","https://openalex.org/W2039286232","https://openalex.org/W2051139824","https://openalex.org/W2056002855","https://openalex.org/W2073727170","https://openalex.org/W2074466695","https://openalex.org/W2077013196","https://openalex.org/W2101690350","https://openalex.org/W2102787800","https://openalex.org/W2106756765","https://openalex.org/W2106882534","https://openalex.org/W2110455321","https://openalex.org/W2114683402","https://openalex.org/W2120900302","https://openalex.org/W2121356022","https://openalex.org/W2130919037","https://openalex.org/W2136785696","https://openalex.org/W2144710927","https://openalex.org/W2147055980","https://openalex.org/W2150009446","https://openalex.org/W2152295114","https://openalex.org/W2154514071","https://openalex.org/W2155013516","https://openalex.org/W2265338784","https://openalex.org/W2293652778","https://openalex.org/W4229588480","https://openalex.org/W4233051382","https://openalex.org/W4249255000"],"related_works":["https://openalex.org/W2786732053","https://openalex.org/W1969998603","https://openalex.org/W2023693943","https://openalex.org/W2786141666","https://openalex.org/W2034105313","https://openalex.org/W2183014375","https://openalex.org/W2166492122","https://openalex.org/W1534141866","https://openalex.org/W2100558818","https://openalex.org/W2022983579"],"abstract_inverted_index":{"MOTIVATION:":[0],"Tissue-specific":[1],"transcription":[2,10,22,58,80,88],"factor":[3,23,59,81,89],"binding":[4,24,60,82,90,113],"sites":[5,61,91,114],"give":[6],"insight":[7],"into":[8],"tissue-specific":[9,21,37],"regulation.":[11],"RESULTS:":[12],"We":[13,35,49,85],"describe":[14],"a":[15,51,63,69],"word-counting-based":[16],"tool":[17],"for":[18,115,158],"de":[19],"novo":[20],"site":[25,83],"discovery":[26],"using":[27],"expression":[28,39,45],"information":[29],"in":[30,62,95,131],"addition":[31],"to":[32,43,55,78,103],"sequence":[33,66,72],"information.":[34],"incorporate":[36],"gene":[38,41],"through":[40],"classification":[42],"positive":[44],"and":[46,121,123,149,151],"repressed":[47],"expression.":[48],"present":[50],"direct":[52],"statistical":[53],"approach":[54,75],"find":[56,86],"overrepresented":[57,94,130],"foreground":[64],"promoter":[65,71],"set":[67],"against":[68],"background":[70],"set.":[73],"Our":[74,109,137],"naturally":[76],"extends":[77],"synergistic":[79,144],"search.":[84],"putative":[87],"that":[92,112,140],"are":[93,127,156],"the":[96,128,161],"proximal":[97,104,132],"promoters":[98,105,133],"of":[99,106,134],"liver-specific":[100,135],"genes":[101],"relative":[102],"liver-independent":[107],"genes.":[108,136],"results":[110,138],"indicate":[111],"hepatocyte":[116],"nuclear":[117],"factors":[118],"(especially":[119],"HNF-1":[120],"HNF-4)":[122],"CCAAT/enhancer-binding":[124],"protein":[125],"(C/EBPbeta)":[126],"most":[129],"suggest":[139],"HNF-4":[141,148],"has":[142],"strong":[143],"relationships":[145],"with":[146,152],"HNF-1,":[147],"HNF-3beta":[150],"C/EBPbeta.":[153],"AVAILABILITY:":[154],"Programs":[155],"available":[157],"use":[159],"over":[160],"Web":[162],"at":[163],"http://rulai.cshl.edu/tools/dwe.":[164]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2016,"cited_by_count":1},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}