{"id":"https://openalex.org/W2149627698","doi":"https://doi.org/10.1186/1471-2105-11-237","title":"ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data","display_name":"ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data","publication_year":2010,"publication_date":"2010-05-11","ids":{"openalex":"https://openalex.org/W2149627698","doi":"https://doi.org/10.1186/1471-2105-11-237","mag":"2149627698","pmid":"https://pubmed.ncbi.nlm.nih.gov/20459804"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-237","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-237","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-237","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/10.1186/1471-2105-11-237","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070760688","display_name":"Lihua Julie Zhu","orcid":"https://orcid.org/0000-0001-7416-0590"},"institutions":[{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Lihua J Zhu","raw_affiliation_strings":["Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA. julie.zhu@umassmed.edu","Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA"],"affiliations":[{"raw_affiliation_string":"Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA. julie.zhu@umassmed.edu","institution_ids":["https://openalex.org/I166722992"]},{"raw_affiliation_string":"Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","institution_ids":["https://openalex.org/I166722992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005254146","display_name":"Claude Gazin","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"funder","lineage":["https://openalex.org/I2738703131"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Claude Gazin","raw_affiliation_strings":["UMR217 CNRS/CEA, iRCM-CEA, Evry, Ile de France, 91057, France"],"affiliations":[{"raw_affiliation_string":"UMR217 CNRS/CEA, iRCM-CEA, Evry, Ile de France, 91057, France","institution_ids":["https://openalex.org/I2738703131","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055322887","display_name":"Nathan D. Lawson","orcid":"https://orcid.org/0000-0001-7788-9619"},"institutions":[{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nathan D Lawson","raw_affiliation_strings":["Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA"],"affiliations":[{"raw_affiliation_string":"Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","institution_ids":["https://openalex.org/I166722992"]},{"raw_affiliation_string":"Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","institution_ids":["https://openalex.org/I166722992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090946206","display_name":"Herv\u00e9 Pag\u00e8s","orcid":"https://orcid.org/0009-0002-8272-4522"},"institutions":[{"id":"https://openalex.org/I4210089486","display_name":"Fred Hutch Cancer Center","ror":"https://ror.org/007ps6h72","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210089486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Herv\u00e9 Pag\u00e8s","raw_affiliation_strings":["Program in Computational Biology, Fred Hutchinson Cancer Research Center, Seattle, Washington, 98109-1024, USA"],"affiliations":[{"raw_affiliation_string":"Program in Computational Biology, Fred Hutchinson Cancer Research Center, Seattle, Washington, 98109-1024, USA","institution_ids":["https://openalex.org/I4210089486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044867776","display_name":"Simon Lin","orcid":"https://orcid.org/0000-0001-9870-2198"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Simon M Lin","raw_affiliation_strings":["The Biomedical Informatics Center, Northwestern University, Chicago, IL, 60611, USA"],"affiliations":[{"raw_affiliation_string":"The Biomedical Informatics Center, Northwestern University, Chicago, IL, 60611, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032686697","display_name":"David Lapointe","orcid":"https://orcid.org/0000-0002-9697-0399"},"institutions":[{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David S Lapointe","raw_affiliation_strings":["Information Services, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA"],"affiliations":[{"raw_affiliation_string":"Information Services, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","institution_ids":["https://openalex.org/I166722992"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101813098","display_name":"Michael R. Green","orcid":"https://orcid.org/0000-0003-3017-3298"},"institutions":[{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael R Green","raw_affiliation_strings":["Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA"],"affiliations":[{"raw_affiliation_string":"Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","institution_ids":["https://openalex.org/I166722992"]},{"raw_affiliation_string":"Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, Massachusetts, 01605, USA","institution_ids":["https://openalex.org/I166722992"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5070760688"],"corresponding_institution_ids":["https://openalex.org/I166722992"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":9.2169,"has_fulltext":true,"cited_by_count":1270,"citation_normalized_percentile":{"value":0.98672247,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"11","issue":"1","first_page":"237","last_page":"237"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9994999766349792,"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":0.9955000281333923,"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/bioconductor","display_name":"Bioconductor","score":0.7785110473632812},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.5924103260040283},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5391139984130859},{"id":"https://openalex.org/keywords/chromatin-immunoprecipitation","display_name":"Chromatin immunoprecipitation","score":0.5340660214424133},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5298148393630981},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5201480984687805},{"id":"https://openalex.org/keywords/chip","display_name":"Chip","score":0.48964768648147583},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4789853096008301},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.44615039229393005},{"id":"https://openalex.org/keywords/chip-sequencing","display_name":"ChIP-sequencing","score":0.4225372076034546},{"id":"https://openalex.org/keywords/tiling-array","display_name":"Tiling array","score":0.4188884198665619},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.382851243019104},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36625123023986816},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.2913975715637207},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.27911680936813354},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.1934921145439148},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.12620776891708374},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.10488173365592957},{"id":"https://openalex.org/keywords/nucleosome","display_name":"Nucleosome","score":0.09828686714172363}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.7785110473632812},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.5924103260040283},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5391139984130859},{"id":"https://openalex.org/C134320426","wikidata":"https://www.wikidata.org/wiki/Q901026","display_name":"Chromatin immunoprecipitation","level":5,"score":0.5340660214424133},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5298148393630981},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5201480984687805},{"id":"https://openalex.org/C165005293","wikidata":"https://www.wikidata.org/wiki/Q1074500","display_name":"Chip","level":2,"score":0.48964768648147583},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4789853096008301},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.44615039229393005},{"id":"https://openalex.org/C176619506","wikidata":"https://www.wikidata.org/wiki/Q5065899","display_name":"ChIP-sequencing","level":5,"score":0.4225372076034546},{"id":"https://openalex.org/C119401833","wikidata":"https://www.wikidata.org/wiki/Q7802158","display_name":"Tiling array","level":5,"score":0.4188884198665619},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.382851243019104},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36625123023986816},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.2913975715637207},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.27911680936813354},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.1934921145439148},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.12620776891708374},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.10488173365592957},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.09828686714172363},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"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":"D001665","descriptor_name":"Binding Sites","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-11-237","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-237","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-237","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:20459804","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20459804","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:escholarship.umassmed.edu:oapubs-3226","is_oa":false,"landing_page_url":"https://escholarship.umassmed.edu/oapubs/2227","pdf_url":null,"source":{"id":"https://openalex.org/S4306400883","display_name":"The Journal of the American Medical Association (JAMA) Network (American Medical Association)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I173654999","host_organization_name":"American Medical Association","host_organization_lineage":["https://openalex.org/I173654999"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Open Access Publications by UMass Chan Authors","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:7237726074f34435b03929bdd35c847b","is_oa":true,"landing_page_url":"https://doaj.org/article/7237726074f34435b03929bdd35c847b","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 11, Iss 1, p 237 (2010)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3098059","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3098059","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:10.1186/1471-2105-11-237","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-237","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-237","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/F4320310931","display_name":"Capital Normal University","ror":"https://ror.org/005edt527"},{"id":"https://openalex.org/F4320332606","display_name":"University of Massachusetts Medical School","ror":"https://ror.org/0464eyp60"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2149627698.pdf","grobid_xml":"https://content.openalex.org/works/W2149627698.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1577222190","https://openalex.org/W1592870802","https://openalex.org/W1963778673","https://openalex.org/W1967656072","https://openalex.org/W1969761972","https://openalex.org/W1996212302","https://openalex.org/W2022148802","https://openalex.org/W2022617545","https://openalex.org/W2059699217","https://openalex.org/W2081098333","https://openalex.org/W2085060961","https://openalex.org/W2097220641","https://openalex.org/W2099143842","https://openalex.org/W2103017472","https://openalex.org/W2103522843","https://openalex.org/W2111589020","https://openalex.org/W2111933532","https://openalex.org/W2114104545","https://openalex.org/W2116305918","https://openalex.org/W2119034410","https://openalex.org/W2123460634","https://openalex.org/W2124163981","https://openalex.org/W2124866579","https://openalex.org/W2125114453","https://openalex.org/W2129795133","https://openalex.org/W2141222038","https://openalex.org/W2145825942","https://openalex.org/W2146453000","https://openalex.org/W2160697532","https://openalex.org/W2171808845","https://openalex.org/W4255852734","https://openalex.org/W6806866965"],"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/W2090880234","https://openalex.org/W2169628276","https://openalex.org/W2748775562","https://openalex.org/W2950741865","https://openalex.org/W2798336513"],"abstract_inverted_index":{"ChIPpeakAnno":[0],"enables":[1,70],"batch":[2],"annotation":[3,38,55,72],"of":[4,22],"the":[5,27,67,75],"binding":[6],"sites":[7],"identified":[8],"from":[9,51,74],"ChIP-seq,":[10],"ChIP-chip,":[11],"CAGE":[12],"or":[13,53],"any":[14],"technology":[15],"that":[16],"results":[17],"in":[18],"a":[19,42,49],"large":[20],"number":[21],"enriched":[23],"genomic":[24],"regions":[25],"within":[26],"statistical":[28],"programming":[29],"environment":[30],"R.":[31],"Allowing":[32],"users":[33],"to":[34,66],"pass":[35],"their":[36],"own":[37],"data":[39],"such":[40,57],"as":[41,58],"different":[43],"Chromatin":[44],"immunoprecipitation":[45],"(ChIP)":[46],"preparation":[47],"and":[48,60],"dataset":[50],"literature,":[52],"existing":[54],"packages,":[56],"GenomicFeatures":[59],"BSgenome,":[61],"provides":[62],"flexibility.":[63],"Tight":[64],"integration":[65],"biomaRt":[68],"package":[69],"up-to-date":[71],"retrieval":[73],"BioMart":[76],"database.":[77]},"counts_by_year":[{"year":2026,"cited_by_count":24},{"year":2025,"cited_by_count":125},{"year":2024,"cited_by_count":139},{"year":2023,"cited_by_count":147},{"year":2022,"cited_by_count":125},{"year":2021,"cited_by_count":159},{"year":2020,"cited_by_count":113},{"year":2019,"cited_by_count":90},{"year":2018,"cited_by_count":65},{"year":2017,"cited_by_count":58},{"year":2016,"cited_by_count":58},{"year":2015,"cited_by_count":44},{"year":2014,"cited_by_count":54},{"year":2013,"cited_by_count":30},{"year":2012,"cited_by_count":23}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}