{"id":"https://openalex.org/W2170628952","doi":"https://doi.org/10.1093/bioinformatics/bti173","title":"Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster","display_name":"Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster","publication_year":2004,"publication_date":"2004-11-30","ids":{"openalex":"https://openalex.org/W2170628952","doi":"https://doi.org/10.1093/bioinformatics/bti173","mag":"2170628952","pmid":"https://pubmed.ncbi.nlm.nih.gov/15572468"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bti173","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti173","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/8/1747/48973254/bioinformatics_21_8_1747.pdf","source":{"id":"https://openalex.org/S4210188263","display_name":"Computer applications in the biosciences","issn_l":"0266-7061","issn":["0266-7061","1460-2059"],"is_oa":false,"is_in_doaj":false,"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","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/21/8/1747/48973254/bioinformatics_21_8_1747.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079037577","display_name":"Casey Bergman","orcid":"https://orcid.org/0000-0002-5462-9854"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"C. M. Bergman","raw_affiliation_strings":["Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK. cbergman@gen.cam.ac.uk","Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK,"],"affiliations":[{"raw_affiliation_string":"Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK. cbergman@gen.cam.ac.uk","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK,","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006183011","display_name":"Joe Carlson","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"J. W. Carlson","raw_affiliation_strings":["Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA","Department of Genome Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA and"],"affiliations":[{"raw_affiliation_string":"Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Department of Genome Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA and","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073704452","display_name":"S Celniker","orcid":"https://orcid.org/0000-0002-8019-0267"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. E. Celniker","raw_affiliation_strings":["Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA","Department of Genome Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA and"],"affiliations":[{"raw_affiliation_string":"Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Department of Genome Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA and","institution_ids":["https://openalex.org/I148283060"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5079037577"],"corresponding_institution_ids":["https://openalex.org/I241749"],"apc_list":null,"apc_paid":null,"fwci":5.4262,"has_fulltext":true,"cited_by_count":187,"citation_normalized_percentile":{"value":0.96747081,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"21","issue":"8","first_page":"1747","last_page":"1749"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9994000196456909,"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":0.9994000196456909,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9976999759674072,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9926999807357788,"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/drosophila-melanogaster","display_name":"Drosophila melanogaster","score":0.8333938121795654},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6211033463478088},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.6196672916412354},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5942751169204712},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5932682752609253},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.586845874786377},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5814258456230164},{"id":"https://openalex.org/keywords/melanogaster","display_name":"Melanogaster","score":0.573118269443512},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.46794265508651733},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4555434584617615},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.4136834740638733},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.27574753761291504},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.11517959833145142}],"concepts":[{"id":"https://openalex.org/C2780104201","wikidata":"https://www.wikidata.org/wiki/Q130888","display_name":"Drosophila melanogaster","level":3,"score":0.8333938121795654},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6211033463478088},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.6196672916412354},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5942751169204712},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5932682752609253},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.586845874786377},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5814258456230164},{"id":"https://openalex.org/C2776998849","wikidata":"https://www.wikidata.org/wiki/Q3766082","display_name":"Melanogaster","level":4,"score":0.573118269443512},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.46794265508651733},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4555434584617615},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.4136834740638733},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.27574753761291504},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.11517959833145142}],"mesh":[{"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":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D018983","descriptor_name":"DNA Footprinting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018983","descriptor_name":"DNA Footprinting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018983","descriptor_name":"DNA Footprinting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023302","descriptor_name":"Protein Footprinting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023302","descriptor_name":"Protein Footprinting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023302","descriptor_name":"Protein Footprinting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bti173","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti173","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/8/1747/48973254/bioinformatics_21_8_1747.pdf","source":{"id":"https://openalex.org/S4210188263","display_name":"Computer applications in the biosciences","issn_l":"0266-7061","issn":["0266-7061","1460-2059"],"is_oa":false,"is_in_doaj":false,"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:15572468","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15572468","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:pure.atira.dk:openaire_cris_publications/354b73bf-229f-4e19-802b-66428637482a","is_oa":false,"landing_page_url":"https://research.manchester.ac.uk/en/publications/354b73bf-229f-4e19-802b-66428637482a","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bergman, C M, Carlson, J W & Celniker, S E 2005, 'Drosophila DNase I footprint database: A systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster', Bioinformatics, vol. 21, no. 8, pp. 1747-1749. https://doi.org/10.1093/bioinformatics/bti173","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:pure.atira.dk:publications/354b73bf-229f-4e19-802b-66428637482a","is_oa":false,"landing_page_url":"https://www.research.manchester.ac.uk/portal/en/publications/drosophila-dnase-i-footprint-database-a-systematic-genome-annotation-of-transcription-factor-binding-sites-in-the-fruitfly-drosophila-melanogaster(354b73bf-229f-4e19-802b-66428637482a).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bergman, C M, Carlson, J W & Celniker, S E 2005, 'Drosophila DNase I footprint database: A systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster', Bioinformatics, vol. 21, no. 8, pp. 1747-1749. https://doi.org/10.1093/bioinformatics/bti173","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bti173","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti173","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/8/1747/48973254/bioinformatics_21_8_1747.pdf","source":{"id":"https://openalex.org/S4210188263","display_name":"Computer applications in the biosciences","issn_l":"0266-7061","issn":["0266-7061","1460-2059"],"is_oa":false,"is_in_doaj":false,"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":[],"awards":[{"id":"https://openalex.org/G1934407441","display_name":null,"funder_award_id":"00267","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2294964640","display_name":null,"funder_award_id":"50 and","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2170628952.pdf","grobid_xml":"https://content.openalex.org/works/W2170628952.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1989080074","https://openalex.org/W2017200304","https://openalex.org/W2030823670","https://openalex.org/W2033785622","https://openalex.org/W2046374070","https://openalex.org/W2083052219","https://openalex.org/W2117549173","https://openalex.org/W2119104284","https://openalex.org/W2122774081","https://openalex.org/W2125515637","https://openalex.org/W2136154640","https://openalex.org/W2137502130","https://openalex.org/W2140115103","https://openalex.org/W2140538490","https://openalex.org/W2152399502","https://openalex.org/W2165228646"],"related_works":["https://openalex.org/W3217674162","https://openalex.org/W1972794703","https://openalex.org/W2075087776","https://openalex.org/W2086842568","https://openalex.org/W2013474102","https://openalex.org/W2014093629","https://openalex.org/W2429278941","https://openalex.org/W4256012716","https://openalex.org/W4230768823","https://openalex.org/W4238951837"],"abstract_inverted_index":{"cbergman@gen.cam.ac.uk.":[0]},"counts_by_year":[{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":7},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":10},{"year":2012,"cited_by_count":8}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
