{"id":"https://openalex.org/W3088926825","doi":"https://doi.org/10.1186/s12859-020-03729-6","title":"Theoretical characterisation of strand cross-correlation in ChIP-seq","display_name":"Theoretical characterisation of strand cross-correlation in ChIP-seq","publication_year":2020,"publication_date":"2020-09-22","ids":{"openalex":"https://openalex.org/W3088926825","doi":"https://doi.org/10.1186/s12859-020-03729-6","mag":"3088926825","pmid":"https://pubmed.ncbi.nlm.nih.gov/32962634"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-03729-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03729-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03729-6","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/track/pdf/10.1186/s12859-020-03729-6","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075954195","display_name":"Hayato Anzawa","orcid":"https://orcid.org/0000-0002-9446-1291"},"institutions":[{"id":"https://openalex.org/I201537933","display_name":"Tohoku University","ror":"https://ror.org/01dq60k83","country_code":"JP","type":"education","lineage":["https://openalex.org/I201537933"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Hayato Anzawa","raw_affiliation_strings":["Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan","institution_ids":["https://openalex.org/I201537933"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025520422","display_name":"Hitoshi Yamagata","orcid":"https://orcid.org/0000-0001-7870-0769"},"institutions":[{"id":"https://openalex.org/I1320697193","display_name":"Canon (Japan)","ror":"https://ror.org/05gg0gh87","country_code":"JP","type":"company","lineage":["https://openalex.org/I1320697193"]},{"id":"https://openalex.org/I4399598468","display_name":"Canon Medical Systems Corporation (Japan)","ror":"https://ror.org/01qpswk97","country_code":null,"type":"company","lineage":["https://openalex.org/I4399598468"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hitoshi Yamagata","raw_affiliation_strings":["Advanced Research Laboratory, Canon Medical Systems Corporation, Otawara, Tochigi, Japan"],"affiliations":[{"raw_affiliation_string":"Advanced Research Laboratory, Canon Medical Systems Corporation, Otawara, Tochigi, Japan","institution_ids":["https://openalex.org/I1320697193","https://openalex.org/I4399598468"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018416641","display_name":"Kengo Kinoshita","orcid":"https://orcid.org/0000-0003-3453-2171"},"institutions":[{"id":"https://openalex.org/I201537933","display_name":"Tohoku University","ror":"https://ror.org/01dq60k83","country_code":"JP","type":"education","lineage":["https://openalex.org/I201537933"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kengo Kinoshita","raw_affiliation_strings":["Advanced Research Laboratory, Canon Medical Systems Corporation, Otawara, Tochigi, Japan. kengo@ecei.tohoku.ac.jp","Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan. kengo@ecei.tohoku.ac.jp","Institute of Development, Aging and Cancer, Tohoku University, Sendai, Miyagi, Japan. kengo@ecei.tohoku.ac.jp","Tohoku Medical Megabank Organization, Sendai, Miyagi, Japan. kengo@ecei.tohoku.ac.jp","Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan"],"affiliations":[{"raw_affiliation_string":"Advanced Research Laboratory, Canon Medical Systems Corporation, Otawara, Tochigi, Japan. kengo@ecei.tohoku.ac.jp","institution_ids":[]},{"raw_affiliation_string":"Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan. kengo@ecei.tohoku.ac.jp","institution_ids":[]},{"raw_affiliation_string":"Institute of Development, Aging and Cancer, Tohoku University, Sendai, Miyagi, Japan. kengo@ecei.tohoku.ac.jp","institution_ids":[]},{"raw_affiliation_string":"Tohoku Medical Megabank Organization, Sendai, Miyagi, Japan. kengo@ecei.tohoku.ac.jp","institution_ids":[]},{"raw_affiliation_string":"Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan","institution_ids":["https://openalex.org/I201537933"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5075954195"],"corresponding_institution_ids":["https://openalex.org/I201537933"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.2504,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.54553372,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":95},"biblio":{"volume":"21","issue":"1","first_page":"417","last_page":"417"},"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":0.9952999949455261,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/chip","display_name":"Chip","score":0.6705929040908813},{"id":"https://openalex.org/keywords/correlation","display_name":"Correlation","score":0.5665162801742554},{"id":"https://openalex.org/keywords/cross-correlation","display_name":"Cross-correlation","score":0.5664691925048828},{"id":"https://openalex.org/keywords/consistency","display_name":"Consistency (knowledge bases)","score":0.5577307343482971},{"id":"https://openalex.org/keywords/metric","display_name":"Metric (unit)","score":0.543441891670227},{"id":"https://openalex.org/keywords/independence","display_name":"Independence (probability theory)","score":0.5416001677513123},{"id":"https://openalex.org/keywords/noise","display_name":"Noise (video)","score":0.5254073143005371},{"id":"https://openalex.org/keywords/measure","display_name":"Measure (data warehouse)","score":0.5196112990379333},{"id":"https://openalex.org/keywords/correlation-coefficient","display_name":"Correlation coefficient","score":0.4889935255050659},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.4818935990333557},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44355830550193787},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.43994027376174927},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.326010525226593},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.27240753173828125},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.2641301155090332},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.1382243037223816},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.12878036499023438},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.11469483375549316},{"id":"https://openalex.org/keywords/electronic-engineering","display_name":"Electronic engineering","score":0.10797759890556335}],"concepts":[{"id":"https://openalex.org/C165005293","wikidata":"https://www.wikidata.org/wiki/Q1074500","display_name":"Chip","level":2,"score":0.6705929040908813},{"id":"https://openalex.org/C117220453","wikidata":"https://www.wikidata.org/wiki/Q5172842","display_name":"Correlation","level":2,"score":0.5665162801742554},{"id":"https://openalex.org/C163018871","wikidata":"https://www.wikidata.org/wiki/Q1302587","display_name":"Cross-correlation","level":2,"score":0.5664691925048828},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.5577307343482971},{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.543441891670227},{"id":"https://openalex.org/C35651441","wikidata":"https://www.wikidata.org/wiki/Q625303","display_name":"Independence (probability theory)","level":2,"score":0.5416001677513123},{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.5254073143005371},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.5196112990379333},{"id":"https://openalex.org/C2780092901","wikidata":"https://www.wikidata.org/wiki/Q3433612","display_name":"Correlation coefficient","level":2,"score":0.4889935255050659},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.4818935990333557},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44355830550193787},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.43994027376174927},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.326010525226593},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.27240753173828125},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2641301155090332},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.1382243037223816},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.12878036499023438},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.11469483375549316},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.10797759890556335},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C21547014","wikidata":"https://www.wikidata.org/wiki/Q1423657","display_name":"Operations management","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-020-03729-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03729-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03729-6","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:32962634","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32962634","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:8257382e7ff3417a96b4459e1a0d4e33","is_oa":true,"landing_page_url":"https://doaj.org/article/8257382e7ff3417a96b4459e1a0d4e33","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-19 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7510163","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7510163","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-03729-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03729-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-03729-6","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":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320315975","display_name":"Canon Medical Systems Corporation","ror":null},{"id":"https://openalex.org/F4320338065","display_name":"Institute of Genetics","ror":"https://ror.org/03gwhmn95"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3088926825.pdf","grobid_xml":"https://content.openalex.org/works/W3088926825.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W1964469314","https://openalex.org/W1968475238","https://openalex.org/W1996203485","https://openalex.org/W2018742603","https://openalex.org/W2035769168","https://openalex.org/W2076154138","https://openalex.org/W2078526277","https://openalex.org/W2099698839","https://openalex.org/W2100148142","https://openalex.org/W2102904139","https://openalex.org/W2103441770","https://openalex.org/W2107054672","https://openalex.org/W2108234281","https://openalex.org/W2108614159","https://openalex.org/W2122686681","https://openalex.org/W2124514674","https://openalex.org/W2128016314","https://openalex.org/W2132215769","https://openalex.org/W2132378736","https://openalex.org/W2133130714","https://openalex.org/W2158734721","https://openalex.org/W2158948026","https://openalex.org/W2167967077","https://openalex.org/W2171111703","https://openalex.org/W2171808845","https://openalex.org/W2192789229","https://openalex.org/W2259938310","https://openalex.org/W2277285385","https://openalex.org/W2278675304","https://openalex.org/W2305228807","https://openalex.org/W2528138045","https://openalex.org/W2754863086","https://openalex.org/W2767826728","https://openalex.org/W2951596218","https://openalex.org/W2953263404"],"related_works":["https://openalex.org/W3125750421","https://openalex.org/W68147753","https://openalex.org/W2949765904","https://openalex.org/W4306949324","https://openalex.org/W4388544318","https://openalex.org/W618363683","https://openalex.org/W1978104062","https://openalex.org/W2384602569","https://openalex.org/W2389047448","https://openalex.org/W4296380216"],"abstract_inverted_index":{"We":[0],"present":[1],"the":[2,7,11,14,17,37],"first":[3],"theoretical":[4],"insights":[5],"into":[6],"strand":[8,20],"cross-correlation,":[9],"and":[10,16,33],"results":[12],"reveal":[13],"potential":[15],"limitations":[18],"of":[19,39],"cross-correlation":[21],"analysis.":[22],"Our":[23],"quality":[24],"assessment":[25],"framework":[26],"using":[27],"VSN":[28],"provides":[29],"peak":[30,40],"call-independent":[31],"QC":[32],"will":[34],"help":[35],"in":[36,43],"evaluation":[38],"call":[41],"analysis":[42],"ChIP-seq":[44],"experiments.":[45]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
