{"id":"https://openalex.org/W2131994815","doi":"https://doi.org/10.1093/bioinformatics/btu604","title":"SignalSpider: probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles","display_name":"SignalSpider: probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles","publication_year":2014,"publication_date":"2014-09-05","ids":{"openalex":"https://openalex.org/W2131994815","doi":"https://doi.org/10.1093/bioinformatics/btu604","mag":"2131994815","pmid":"https://pubmed.ncbi.nlm.nih.gov/25192742"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu604","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu604","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/1/17/49011762/bioinformatics_31_1_17.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/31/1/17/49011762/bioinformatics_31_1_17.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030015771","display_name":"Ka\u2010Chun Wong","orcid":"https://orcid.org/0000-0001-6062-733X"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Ka-Chun Wong","raw_affiliation_strings":["1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100387866","display_name":"Yue Li","orcid":"https://orcid.org/0000-0003-4210-1806"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Yue Li","raw_affiliation_strings":["1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101465378","display_name":"Chengbin Peng","orcid":"https://orcid.org/0000-0002-7445-2638"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Chengbin Peng","raw_affiliation_strings":["1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009847434","display_name":"Zhaolei Zhang","orcid":"https://orcid.org/0000-0002-7303-6472"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Zhaolei Zhang","raw_affiliation_strings":["1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science and 2 Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 CEMSE Division, King Abdullah University of Science and Technology, Thuwal, Jeddah, K.S.A., 4 Banting and Best Department of Medical Research and 5 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada","institution_ids":["https://openalex.org/I185261750"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5009847434"],"corresponding_institution_ids":["https://openalex.org/I185261750"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.2108,"has_fulltext":false,"cited_by_count":33,"citation_normalized_percentile":{"value":0.92662076,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"31","issue":"1","first_page":"17","last_page":"24"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9440000057220459,"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":0.9440000057220459,"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":0.013000000268220901,"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":0.008500000461935997,"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/chromatin-immunoprecipitation","display_name":"Chromatin immunoprecipitation","score":0.6699270606040955},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5572872757911682},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5292717218399048},{"id":"https://openalex.org/keywords/decipher","display_name":"DECIPHER","score":0.5181485414505005},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5053172707557678},{"id":"https://openalex.org/keywords/encode","display_name":"ENCODE","score":0.502077579498291},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.44294238090515137},{"id":"https://openalex.org/keywords/tiling-array","display_name":"Tiling array","score":0.4387727379798889},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.4355286955833435},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.4266255497932434},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4220649302005768},{"id":"https://openalex.org/keywords/enhancer","display_name":"Enhancer","score":0.4155653119087219},{"id":"https://openalex.org/keywords/chip-sequencing","display_name":"ChIP-sequencing","score":0.4134281277656555},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.38397467136383057},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.27991461753845215},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.27462977170944214},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.2605459988117218},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.18135961890220642},{"id":"https://openalex.org/keywords/chromatin-remodeling","display_name":"Chromatin remodeling","score":0.09964922070503235},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.09764724969863892}],"concepts":[{"id":"https://openalex.org/C134320426","wikidata":"https://www.wikidata.org/wiki/Q901026","display_name":"Chromatin immunoprecipitation","level":5,"score":0.6699270606040955},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5572872757911682},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5292717218399048},{"id":"https://openalex.org/C164614171","wikidata":"https://www.wikidata.org/wiki/Q5204775","display_name":"DECIPHER","level":2,"score":0.5181485414505005},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5053172707557678},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.502077579498291},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.44294238090515137},{"id":"https://openalex.org/C119401833","wikidata":"https://www.wikidata.org/wiki/Q7802158","display_name":"Tiling array","level":5,"score":0.4387727379798889},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.4355286955833435},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.4266255497932434},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4220649302005768},{"id":"https://openalex.org/C111936080","wikidata":"https://www.wikidata.org/wiki/Q913367","display_name":"Enhancer","level":4,"score":0.4155653119087219},{"id":"https://openalex.org/C176619506","wikidata":"https://www.wikidata.org/wiki/Q5065899","display_name":"ChIP-sequencing","level":5,"score":0.4134281277656555},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.38397467136383057},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.27991461753845215},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.27462977170944214},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.2605459988117218},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.18135961890220642},{"id":"https://openalex.org/C167227067","wikidata":"https://www.wikidata.org/wiki/Q5113739","display_name":"Chromatin remodeling","level":4,"score":0.09964922070503235},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.09764724969863892}],"mesh":[{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","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":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","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":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":"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":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"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":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btu604","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu604","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/1/17/49011762/bioinformatics_31_1_17.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:25192742","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25192742","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:repository.kaust.edu.sa:10754/563751","is_oa":false,"landing_page_url":"http://hdl.handle.net/10754/563751","pdf_url":null,"source":{"id":"https://openalex.org/S4306401596","display_name":"King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71920554","host_organization_name":"King Abdullah University of Science and Technology","host_organization_lineage":["https://openalex.org/I71920554"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu604","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu604","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/1/17/49011762/bioinformatics_31_1_17.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":[{"id":"https://metadata.un.org/sdg/15","score":0.6499999761581421,"display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":48,"referenced_works":["https://openalex.org/W1873501834","https://openalex.org/W1984001597","https://openalex.org/W1991259976","https://openalex.org/W1994122295","https://openalex.org/W2001554877","https://openalex.org/W2003516452","https://openalex.org/W2008226163","https://openalex.org/W2012170303","https://openalex.org/W2013336813","https://openalex.org/W2018363492","https://openalex.org/W2019422906","https://openalex.org/W2020820932","https://openalex.org/W2023825334","https://openalex.org/W2032200433","https://openalex.org/W2036460854","https://openalex.org/W2044164623","https://openalex.org/W2052296178","https://openalex.org/W2055801225","https://openalex.org/W2062237921","https://openalex.org/W2067024032","https://openalex.org/W2068065167","https://openalex.org/W2080099205","https://openalex.org/W2089200494","https://openalex.org/W2098513996","https://openalex.org/W2108666233","https://openalex.org/W2109897790","https://openalex.org/W2113122482","https://openalex.org/W2115114534","https://openalex.org/W2118628540","https://openalex.org/W2119282539","https://openalex.org/W2129066856","https://openalex.org/W2129795133","https://openalex.org/W2135993011","https://openalex.org/W2142270559","https://openalex.org/W2145191876","https://openalex.org/W2145429131","https://openalex.org/W2157750191","https://openalex.org/W2158874456","https://openalex.org/W2161579926","https://openalex.org/W2164928285","https://openalex.org/W2166058459","https://openalex.org/W2170589604","https://openalex.org/W2259938310","https://openalex.org/W3139328003","https://openalex.org/W4230875896","https://openalex.org/W4248318091","https://openalex.org/W6677696412","https://openalex.org/W6791582515"],"related_works":["https://openalex.org/W196124755","https://openalex.org/W2164235180","https://openalex.org/W2049726768","https://openalex.org/W1996212302","https://openalex.org/W2410864125","https://openalex.org/W2169628276","https://openalex.org/W2748775562","https://openalex.org/W2950741865","https://openalex.org/W1535515588","https://openalex.org/W2289499401"],"abstract_inverted_index":{"MOTIVATION:":[0],"Chromatin":[1],"immunoprecipitation":[2],"(ChIP)":[3],"followed":[4],"by":[5,63,148],"high-throughput":[6],"sequencing":[7],"(ChIP-Seq)":[8],"measures":[9],"the":[10,42,59,79,119,124,177,184,212],"genome-wide":[11,178,198],"occupancy":[12],"of":[13,20,44,83,141],"transcription":[14,65,85,179],"factors":[15],"in":[16,26,31,97],"vivo.":[17],"Different":[18],"combinations":[19],"DNA-binding":[21],"protein":[22],"occupancies":[23],"may":[24],"result":[25],"a":[27,73,169,197],"gene":[28,194],"being":[29],"expressed":[30],"different":[32,36,133],"tissues":[33],"or":[34],"at":[35,211],"developmental":[37],"stages.":[38],"To":[39],"fully":[40],"understand":[41],"functions":[43],"genes,":[45],"it":[46],"is":[47],"essential":[48],"to":[49,57,77,175,196],"develop":[50],"probabilistic":[51,74],"models":[52,185],"on":[53,118,193],"multiple":[54,64,84,111],"ChIP-Seq":[55,112,121],"profiles":[56,122],"decipher":[58,78],"combinatorial":[60,80,108,181],"regulatory":[61],"mechanisms":[62],"factors.":[66,86],"RESULTS:":[67],"In":[68],"this":[69],"work,":[70],"we":[71,92],"describe":[72],"model":[75,129],"(SignalSpider)":[76],"binding":[81],"events":[82],"Comparing":[87],"with":[88],"similar":[89],"existing":[90,190],"methods,":[91],"found":[93],"SignalSpider":[94,104,117],"performs":[95],"better":[96],"clustering":[98,144],"promoter":[99],"and":[100,127,136,155,206],"enhancer":[101],"regions.":[102],"Notably,":[103],"can":[105],"learn":[106],"higher-order":[107,134],"patterns":[109,138,145,182],"from":[110,123,183],"profiles.":[113],"We":[114,131,166],"have":[115],"applied":[116],"normalized":[120],"ENCODE":[125],"consortium":[126],"learned":[128],"instances.":[130],"observed":[132],"enrichment":[135,171],"depletion":[137],"across":[139],"sets":[140],"proteins.":[142],"Those":[143],"are":[146,209],"supported":[147],"Gene":[149],"Ontology":[150],"(GO)":[151],"enrichment,":[152,158],"evolutionary":[153],"conservation":[154],"chromatin":[156],"interaction":[157],"offering":[159],"biological":[160],"insights":[161],"for":[162],"further":[163],"focused":[164],"studies.":[165],"also":[167],"proposed":[168],"specific":[170],"map":[172],"visualization":[173],"method":[174],"reveal":[176],"factor":[180],"built,":[186],"which":[187],"extend":[188],"our":[189],"fine-scale":[191],"knowledge":[192],"regulation":[195],"level.":[199],"AVAILABILITY":[200],"AND":[201],"IMPLEMENTATION:":[202],"The":[203],"matrix-algebra-optimized":[204],"executables":[205],"source":[207],"codes":[208],"available":[210],"authors'":[213],"websites:":[214],"http://www.cs.toronto.edu/\u223cwkc/SignalSpider.":[215]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2016,"cited_by_count":9},{"year":2015,"cited_by_count":14}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}