{"id":"https://openalex.org/W1974204730","doi":"https://doi.org/10.1186/1471-2105-10-388","title":"DISPARE: DIScriminative PAttern REfinement for Position Weight Matrices","display_name":"DISPARE: DIScriminative PAttern REfinement for Position Weight Matrices","publication_year":2009,"publication_date":"2009-11-26","ids":{"openalex":"https://openalex.org/W1974204730","doi":"https://doi.org/10.1186/1471-2105-10-388","mag":"1974204730","pmid":"https://pubmed.ncbi.nlm.nih.gov/19941641"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-10-388","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-388","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-388","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/10.1186/1471-2105-10-388","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014700799","display_name":"Isabelle da Piedade","orcid":null},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Isabelle da Piedade","raw_affiliation_strings":["Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Ole Maal\u00f8es Vej 5, DK-2200 Copenhagen N, Denmark. idapiedade@bio.ku.dk","Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Copenhagen N, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Ole Maal\u00f8es Vej 5, DK-2200 Copenhagen N, Denmark. idapiedade@bio.ku.dk","institution_ids":["https://openalex.org/I124055696"]},{"raw_affiliation_string":"Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Copenhagen N, Denmark","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001803514","display_name":"Man\u2010Hung Eric Tang","orcid":"https://orcid.org/0000-0002-3483-0219"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Man-Hung Eric Tang","raw_affiliation_strings":["Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Ole Maal\u00f8es Vej 5, DK-2200, Copenhagen N, Denmark","Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Copenhagen N, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Ole Maal\u00f8es Vej 5, DK-2200, Copenhagen N, Denmark","institution_ids":["https://openalex.org/I124055696"]},{"raw_affiliation_string":"Bioinformatics Centre, Department of Biology & Biotech Research and Innovation Centre, University of Copenhagen, Copenhagen N, Denmark","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5061702711","display_name":"Olivier Elemento","orcid":"https://orcid.org/0000-0002-8061-9617"},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Olivier Elemento","raw_affiliation_strings":["Institute for Computational Biomedicine Weill Medical College of Cornell University, New York, NY, USA","Institute for Computational Biomedicine, Weill Medical College of Cornell University, New York, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Computational Biomedicine Weill Medical College of Cornell University, New York, NY, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Institute for Computational Biomedicine, Weill Medical College of Cornell University, New York, USA","institution_ids":["https://openalex.org/I205783295"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.5477,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.65685479,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"10","issue":"1","first_page":"388","last_page":"388"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9965000152587891,"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":0.9965000152587891,"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/T10268","display_name":"Developmental Biology and Gene Regulation","score":0.0007999999797903001,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.000699999975040555,"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/discriminative-model","display_name":"Discriminative model","score":0.7482439875602722},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.49162107706069946},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48963767290115356},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4546849727630615},{"id":"https://openalex.org/keywords/position","display_name":"Position (finance)","score":0.44254404306411743},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3759988844394684},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3644148111343384},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3382222652435303},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2384379804134369},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.08717697858810425}],"concepts":[{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.7482439875602722},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.49162107706069946},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48963767290115356},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4546849727630615},{"id":"https://openalex.org/C198082294","wikidata":"https://www.wikidata.org/wiki/Q3399648","display_name":"Position (finance)","level":2,"score":0.44254404306411743},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3759988844394684},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3644148111343384},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3382222652435303},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2384379804134369},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08717697858810425},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"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":"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":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-10-388","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-388","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-388","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:19941641","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19941641","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:doaj.org/article:b76131a71bb14e0a873becd2e1f05e35","is_oa":false,"landing_page_url":"https://doaj.org/article/b76131a71bb14e0a873becd2e1f05e35","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 10, Iss 1, p 388 (2009)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:1895261","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2788558","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"},{"id":"pmh:oai:pure.atira.dk:openaire_cris_publications/e0cb9d70-dc92-11de-974b-000ea68e967b","is_oa":true,"landing_page_url":"https://curis.ku.dk/portal/da/publications/dispare(e0cb9d70-dc92-11de-974b-000ea68e967b).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306401983","display_name":"Research at the University of Copenhagen (University of Copenhagen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I124055696","host_organization_name":"University of Copenhagen","host_organization_lineage":["https://openalex.org/I124055696"],"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":"da Piedade , I , Tang , M-H E & Elemento , O 2009 , ' DISPARE : DIScriminative PAttern REfinement for Position Weight Matrices ' , BMC Bioinformatics , vol. 10 , no. 388 . https://doi.org/10.1186/1471-2105-10-388","raw_type":"article"},{"id":"pmh:oai:pure.atira.dk:publications/e0cb9d70-dc92-11de-974b-000ea68e967b","is_oa":true,"landing_page_url":"https://researchprofiles.ku.dk/da/publications/e0cb9d70-dc92-11de-974b-000ea68e967b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401983","display_name":"Research at the University of Copenhagen (University of Copenhagen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I124055696","host_organization_name":"University of Copenhagen","host_organization_lineage":["https://openalex.org/I124055696"],"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":"da Piedade , I , Tang , M-H E & Elemento , O 2009 , ' DISPARE : DIScriminative PAttern REfinement for Position Weight Matrices ' , BMC Bioinformatics , vol. 10 , no. 388 . https://doi.org/10.1186/1471-2105-10-388","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-10-388","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-388","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-388","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":[{"id":"https://metadata.un.org/sdg/10","score":0.7400000095367432,"display_name":"Reduced inequalities"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320322436","display_name":"Novo Nordisk","ror":"https://ror.org/0435rc536"},{"id":"https://openalex.org/F4320325957","display_name":"Novo Nordisk Fonden","ror":"https://ror.org/04txyc737"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1974204730.pdf","grobid_xml":"https://content.openalex.org/works/W1974204730.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W1529944274","https://openalex.org/W1536719366","https://openalex.org/W1592870802","https://openalex.org/W1815199292","https://openalex.org/W1903324674","https://openalex.org/W1990748933","https://openalex.org/W1998300401","https://openalex.org/W1999966058","https://openalex.org/W2003967338","https://openalex.org/W2013449615","https://openalex.org/W2015639563","https://openalex.org/W2023825247","https://openalex.org/W2030823670","https://openalex.org/W2035564383","https://openalex.org/W2050284387","https://openalex.org/W2055741402","https://openalex.org/W2091230759","https://openalex.org/W2095718954","https://openalex.org/W2110015307","https://openalex.org/W2123838014","https://openalex.org/W2128016314","https://openalex.org/W2140166139","https://openalex.org/W2141408320","https://openalex.org/W2145126338","https://openalex.org/W2147794131","https://openalex.org/W2148014281","https://openalex.org/W2148056478","https://openalex.org/W2149680578","https://openalex.org/W2149769193","https://openalex.org/W2152770371","https://openalex.org/W2156635235","https://openalex.org/W2164935229","https://openalex.org/W2166898290","https://openalex.org/W2170628952","https://openalex.org/W2171407623","https://openalex.org/W2341209396","https://openalex.org/W2510854709","https://openalex.org/W2778716599","https://openalex.org/W3016005719","https://openalex.org/W4245023496"],"related_works":["https://openalex.org/W2965546495","https://openalex.org/W4389116644","https://openalex.org/W2153315159","https://openalex.org/W3103844505","https://openalex.org/W259157601","https://openalex.org/W4205463238","https://openalex.org/W2110523656","https://openalex.org/W1482209366","https://openalex.org/W2404514746","https://openalex.org/W1652783584"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,103,115,133,151],"accurate":[2,90,215],"determination":[3],"of":[4,34,49,63,123,141,163,226],"transcription":[5,35,68,94,143,168,175,197],"factor":[6,36,69,95,144,169,176],"binding":[7,32,37,70,96,145,170,199],"affinities":[8],"is":[9,88,177,180],"an":[10,81],"important":[11],"problem":[12],"in":[13,52,91],"biology":[14],"and":[15,45,126,129,161,230],"key":[16],"to":[17,29,137,183,194,207,222,237],"understanding":[18,225],"the":[19,31,53,61,120,124,138,159,174,190],"gene":[20],"regulation":[21],"process.":[22],"Position":[23],"weight":[24,65,83,106,217],"matrices":[25,66,218],"are":[26,119],"commonly":[27],"used":[28],"represent":[30],"properties":[33,200],"sites":[38,71,97,146],"but":[39],"suffer":[40],"from":[41,98,109,148],"low":[42],"information":[43],"content":[44],"a":[46,57,99,185,203,223,234],"large":[47],"number":[48],"false":[50],"matches":[51],"genome.":[54],"We":[55,79],"describe":[56],"novel":[58],"algorithm":[59,134,156],"for":[60,166],"refinement":[62],"position":[64,105,216],"representing":[67],"based":[72],"on":[73],"experimental":[74],"data,":[75],"including":[76],"ChIP-chip":[77,149],"analyses.":[78],"present":[80],"iterative":[82],"matrix":[84,107,127,164],"optimization":[85],"method":[86,125],"that":[87,154],"more":[89,181,214],"distinguishing":[92],"true":[93],"negative":[100],"control":[101],"set.":[102],"initial":[104],"comes":[108],"JASPAR,":[110],"TRANSFAC":[111],"or":[112],"other":[113],"sources.":[114],"main":[116],"new":[117],"features":[118],"discriminative":[121,186],"nature":[122],"width":[128],"length":[130],"optimization.":[131],"RESULTS:":[132],"was":[135],"applied":[136],"increasing":[139],"collection":[140],"known":[142],"obtained":[147],"experiments.":[150],"results":[152],"show":[153],"our":[155],"significantly":[157],"improves":[158],"sensitivity":[160],"specificity":[162],"models":[165],"identifying":[167],"sites.":[171],"CONCLUSION:":[172],"When":[173],"known,":[178],"it":[179],"appropriate":[182],"use":[184],"approach":[187],"such":[188],"as":[189,205],"one":[191],"presented":[192],"here":[193],"derive":[195],"its":[196],"factor-DNA":[198],"starting":[201],"with":[202],"matrix,":[204],"opposed":[206],"performing":[208],"de":[209],"novo":[210],"motif":[211,240],"discovery.":[212,241],"Generating":[213],"will":[219],"ultimately":[220],"contribute":[221],"better":[224,235],"eukaryotic":[227],"transcriptional":[228],"regulation,":[229],"could":[231],"potentially":[232],"offer":[233],"alternative":[236],"ab":[238],"initio":[239]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
