{"id":"https://openalex.org/W2115761267","doi":"https://doi.org/10.1093/nar/gkh465","title":"Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes","display_name":"Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes","publication_year":2004,"publication_date":"2004-07-01","ids":{"openalex":"https://openalex.org/W2115761267","doi":"https://doi.org/10.1093/nar/gkh465","mag":"2115761267","pmid":"https://pubmed.ncbi.nlm.nih.gov/15215380"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkh465","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkh465","pdf_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W199/6211486/gkh465.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","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/nar/article-pdf/32/suppl_2/W199/6211486/gkh465.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067492946","display_name":"Giulio Pavesi","orcid":"https://orcid.org/0000-0001-5705-6249"},"institutions":[{"id":"https://openalex.org/I189158943","display_name":"University of Milan","ror":"https://ror.org/00wjc7c48","country_code":"IT","type":"education","lineage":["https://openalex.org/I189158943"]},{"id":"https://openalex.org/I200420086","display_name":"IULM University","ror":"https://ror.org/04pp4xq32","country_code":"IT","type":"education","lineage":["https://openalex.org/I200420086"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"G. Pavesi","raw_affiliation_strings":["D.I.Co, University of Milan, Milan, Italy"],"affiliations":[{"raw_affiliation_string":"D.I.Co, University of Milan, Milan, Italy","institution_ids":["https://openalex.org/I189158943","https://openalex.org/I200420086"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015795505","display_name":"Paolo Mereghetti","orcid":"https://orcid.org/0000-0001-6012-592X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"P. Mereghetti","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073163964","display_name":"Giancarlo Mauri","orcid":"https://orcid.org/0000-0003-3520-4022"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"G. Mauri","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5005312066","display_name":"Graziano Pesole","orcid":"https://orcid.org/0000-0003-3663-0859"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"G. Pesole","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5067492946"],"corresponding_institution_ids":["https://openalex.org/I189158943","https://openalex.org/I200420086"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":null,"fwci":9.6469,"has_fulltext":false,"cited_by_count":498,"citation_normalized_percentile":{"value":0.98880588,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"32","issue":"Web Server","first_page":"W199","last_page":"W203"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9968000054359436,"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":0.9968000054359436,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9940000176429749,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9869999885559082,"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/biology","display_name":"Biology","score":0.7765587568283081},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.731226921081543},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6390249133110046},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5976617932319641},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5537009239196777},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.5508355498313904},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.5046569108963013},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.49133506417274475},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.43408337235450745},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.43048399686813354},{"id":"https://openalex.org/keywords/web-site","display_name":"Web site","score":0.4167841374874115},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.4139719605445862},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3692893385887146},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.35335302352905273},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.34062376618385315},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3004330098628998},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.2778630256652832},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.24451592564582825}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7765587568283081},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.731226921081543},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6390249133110046},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5976617932319641},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5537009239196777},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.5508355498313904},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.5046569108963013},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.49133506417274475},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.43408337235450745},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.43048399686813354},{"id":"https://openalex.org/C2984519610","wikidata":"https://www.wikidata.org/wiki/Q35127","display_name":"Web site","level":3,"score":0.4167841374874115},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.4139719605445862},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3692893385887146},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.35335302352905273},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.34062376618385315},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3004330098628998},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.2778630256652832},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.24451592564582825},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C55352822","wikidata":"https://www.wikidata.org/wiki/Q5558978","display_name":"Gibbs isotherm","level":3,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C58226133","wikidata":"https://www.wikidata.org/wiki/Q1324199","display_name":"Pulmonary surfactant","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"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":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1093/nar/gkh465","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkh465","pdf_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W199/6211486/gkh465.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:15215380","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15215380","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.98.1537","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.98.1537","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.pesolelab.it/none_PDF/15215380.pdf","raw_type":"text"},{"id":"pmh:oai:air.unimi.it:2434/9777","is_oa":true,"landing_page_url":"http://hdl.handle.net/2434/9777","pdf_url":null,"source":{"id":"https://openalex.org/S4306400516","display_name":"Archivio Istituzionale della Ricerca (Universita Degli Studi Di Milano)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I189158943","host_organization_name":"University of Milan","host_organization_lineage":["https://openalex.org/I189158943"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:boa.unimib.it:10281/2479","is_oa":false,"landing_page_url":"http://hdl.handle.net/10281/2479","pdf_url":null,"source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:162836","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC441603","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:441603","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/441603","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkh465","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkh465","pdf_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W199/6211486/gkh465.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.6800000071525574,"display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2115761267.pdf","grobid_xml":"https://content.openalex.org/works/W2115761267.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W151360824","https://openalex.org/W1536291417","https://openalex.org/W1562374859","https://openalex.org/W1592870802","https://openalex.org/W1990061958","https://openalex.org/W2003967338","https://openalex.org/W2017200304","https://openalex.org/W2039286232","https://openalex.org/W2054984882","https://openalex.org/W2055228856","https://openalex.org/W2128937741","https://openalex.org/W2139028312","https://openalex.org/W2146074524","https://openalex.org/W2148014281","https://openalex.org/W2149769193","https://openalex.org/W2149966579","https://openalex.org/W2151234222","https://openalex.org/W2162111678"],"related_works":["https://openalex.org/W1969771092","https://openalex.org/W2795723184","https://openalex.org/W2025529750","https://openalex.org/W2891858816","https://openalex.org/W184057646","https://openalex.org/W2042874675","https://openalex.org/W129398428","https://openalex.org/W3212414177","https://openalex.org/W2146517458","https://openalex.org/W2521554484"],"abstract_inverted_index":{"One":[0],"of":[1,14,30,39,55,77,83,98,121,142,156,172],"the":[2,12,15,28,37,53,74,110,112,122,137,140,143,150,157,166,173,201,206],"greatest":[3],"challenges":[4],"that":[5],"modern":[6],"molecular":[7],"biology":[8],"is":[9,11,50,65,198],"facing":[10],"understanding":[13],"complex":[16],"mechanisms":[17],"regulating":[18],"gene":[19,40],"expression.":[20],"A":[21],"fundamental":[22],"step":[23],"in":[24,36,80,92],"this":[25],"process":[26],"requires":[27],"characterization":[29],"regulatory":[31,85],"motifs":[32,79,89,144,182],"playing":[33],"key":[34],"roles":[35],"regulation":[38],"expression":[41],"at":[42,200],"transcriptional":[43],"and":[44,129,139,164,191],"post-transcriptional":[45],"levels.":[46],"In":[47,148],"particular,":[48],"transcription":[49,56,103],"modulated":[51],"by":[52,204],"interaction":[54],"factors":[57],"with":[58,161,168],"their":[59,188],"corresponding":[60],"binding":[61,99],"sites.":[62],"Weeder":[63],"Web":[64],"a":[66,81],"web":[67,196],"interface":[68,113,151,197],"to":[69,95,109,118,130,145,187],"Weeder,":[70],"an":[71,169],"algorithm":[72],"for":[73,101],"automatic":[75],"discovery":[76],"conserved":[78],"set":[82],"related":[84],"DNA":[86],"sequences.":[87],"The":[88,195],"found":[90],"are":[91],"turn":[93],"likely":[94],"be":[96,146],"instances":[97],"sites":[100],"some":[102,178,192],"factor.":[104],"Other":[105],"than":[106],"providing":[107],"access":[108],"program,":[111,158],"has":[114],"been":[115],"designed":[116],"so":[117],"make":[119],"usage":[120],"program":[123],"itself":[124],"as":[125,127,175,177],"simple":[126,193],"possible,":[128],"require":[131],"very":[132],"little":[133],"prior":[134],"knowledge":[135],"about":[136],"length":[138],"conservation":[141],"found.":[147],"fact,":[149],"automatically":[152],"starts":[153],"different":[154,162],"runs":[155],"each":[159],"one":[160],"parameters,":[163],"provides":[165],"user":[167],"overall":[170],"summary":[171],"results":[174],"well":[176],"'advice'":[179],"on":[180],"which":[181],"look":[183],"more":[184],"interesting":[185],"according":[186],"statistical":[189],"significance":[190],"considerations.":[194],"available":[199],"address":[202],"www.pesolelab.it":[203],"following":[205],"'Tools'":[207],"link.":[208]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":10},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":16},{"year":2019,"cited_by_count":19},{"year":2018,"cited_by_count":12},{"year":2017,"cited_by_count":19},{"year":2016,"cited_by_count":26},{"year":2015,"cited_by_count":15},{"year":2014,"cited_by_count":25},{"year":2013,"cited_by_count":27},{"year":2012,"cited_by_count":41}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
