{"id":"https://openalex.org/W2148694532","doi":"https://doi.org/10.1093/bioinformatics/bts007","title":"CHROMATRA: a Galaxy tool for visualizing genome-wide chromatin signatures","display_name":"CHROMATRA: a Galaxy tool for visualizing genome-wide chromatin signatures","publication_year":2012,"publication_date":"2012-01-11","ids":{"openalex":"https://openalex.org/W2148694532","doi":"https://doi.org/10.1093/bioinformatics/bts007","mag":"2148694532","pmid":"https://pubmed.ncbi.nlm.nih.gov/22238257"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts007","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts007","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/5/717/48879711/bioinformatics_28_5_717.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/28/5/717/48879711/bioinformatics_28_5_717.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040855011","display_name":"Thomas Hentrich","orcid":"https://orcid.org/0000-0002-1488-9096"},"institutions":[{"id":"https://openalex.org/I4210162161","display_name":"Child and Family Research Institute","ror":"https://ror.org/04yqm9y25","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210162161"]},{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]},{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Thomas Hentrich","raw_affiliation_strings":["1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada"],"affiliations":[{"raw_affiliation_string":"1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada","institution_ids":["https://openalex.org/I141945490","https://openalex.org/I18014758","https://openalex.org/I4210162161"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036871875","display_name":"Julia M. Schulze\u2010Hentrich","orcid":"https://orcid.org/0000-0002-9242-2096"},"institutions":[{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]},{"id":"https://openalex.org/I4210162161","display_name":"Child and Family Research Institute","ror":"https://ror.org/04yqm9y25","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210162161"]},{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Julia M. Schulze","raw_affiliation_strings":["1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada"],"affiliations":[{"raw_affiliation_string":"1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada","institution_ids":["https://openalex.org/I141945490","https://openalex.org/I18014758","https://openalex.org/I4210162161"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005733297","display_name":"Eldon Emberly","orcid":null},"institutions":[{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]},{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]},{"id":"https://openalex.org/I4210162161","display_name":"Child and Family Research Institute","ror":"https://ror.org/04yqm9y25","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210162161"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Eldon Emberly","raw_affiliation_strings":["1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada"],"affiliations":[{"raw_affiliation_string":"1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada","institution_ids":["https://openalex.org/I141945490","https://openalex.org/I18014758","https://openalex.org/I4210162161"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082761941","display_name":"Michael S. Kobor","orcid":"https://orcid.org/0000-0003-4140-1743"},"institutions":[{"id":"https://openalex.org/I4210162161","display_name":"Child and Family Research Institute","ror":"https://ror.org/04yqm9y25","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210162161"]},{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]},{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Michael S. Kobor","raw_affiliation_strings":["1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada"],"affiliations":[{"raw_affiliation_string":"1 Department of Computing Science, University of British Columbia, Vancouver, BC V6T 1Z4, 2Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, Vancouver, BC V5Z 4H4 and 3Department of Physics, Simon Fraser University, Burnaby, BC V5A 1S6, Canada","institution_ids":["https://openalex.org/I141945490","https://openalex.org/I18014758","https://openalex.org/I4210162161"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5005733297","https://openalex.org/A5082761941"],"corresponding_institution_ids":["https://openalex.org/I141945490","https://openalex.org/I18014758","https://openalex.org/I4210162161"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.8068,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.72155823,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"28","issue":"5","first_page":"717","last_page":"718"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9995999932289124,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7105063199996948},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6661534905433655},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.608796238899231},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5794696807861328},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5674750804901123},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5314242839813232},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.5274289846420288},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.42033281922340393},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.34404581785202026},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.33781489729881287},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.312588632106781},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.2756599485874176},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23580041527748108},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.17847615480422974},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.10798859596252441}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7105063199996948},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6661534905433655},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.608796238899231},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5794696807861328},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5674750804901123},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5314242839813232},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.5274289846420288},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.42033281922340393},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.34404581785202026},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.33781489729881287},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.312588632106781},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.2756599485874176},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23580041527748108},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.17847615480422974},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.10798859596252441}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","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":"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":"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":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","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":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D047369","descriptor_name":"Chromatin Immunoprecipitation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bts007","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts007","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/5/717/48879711/bioinformatics_28_5_717.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:22238257","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22238257","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts007","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts007","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/5/717/48879711/bioinformatics_28_5_717.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":[],"awards":[{"id":"https://openalex.org/G4389354971","display_name":null,"funder_award_id":"Research","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G8407211184","display_name":null,"funder_award_id":"Canadian Institute of Health Research","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"}],"funders":[{"id":"https://openalex.org/F4320319965","display_name":"Michael Smith Health Research BC","ror":"https://ror.org/020x39229"},{"id":"https://openalex.org/F4320334506","display_name":"Canadian Institutes of Health Research","ror":"https://ror.org/01gavpb45"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2148694532.pdf","grobid_xml":"https://content.openalex.org/works/W2148694532.grobid-xml"},"referenced_works_count":19,"referenced_works":["https://openalex.org/W2013535834","https://openalex.org/W2023098599","https://openalex.org/W2028403985","https://openalex.org/W2055006617","https://openalex.org/W2061680337","https://openalex.org/W2066310505","https://openalex.org/W2092576641","https://openalex.org/W2098601504","https://openalex.org/W2101259235","https://openalex.org/W2103017472","https://openalex.org/W2103302926","https://openalex.org/W2111465765","https://openalex.org/W2113565103","https://openalex.org/W2118526609","https://openalex.org/W2127640118","https://openalex.org/W2136482257","https://openalex.org/W2164627030","https://openalex.org/W2170778160","https://openalex.org/W4239029175"],"related_works":["https://openalex.org/W1981780420","https://openalex.org/W2182707996","https://openalex.org/W45233828","https://openalex.org/W2964988449","https://openalex.org/W3138117676","https://openalex.org/W2581212852","https://openalex.org/W3092268165","https://openalex.org/W2175953840","https://openalex.org/W4213365651","https://openalex.org/W4229585093"],"abstract_inverted_index":{"https://github.com/cmmt/chromatra.":[0]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":6},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
