{"id":"https://openalex.org/W2041752408","doi":"https://doi.org/10.1371/journal.pcbi.1002163","title":"Podbat: A Novel Genomic Tool Reveals Swr1-Independent H2A.Z Incorporation at Gene Coding Sequences through Epigenetic Meta-Analysis","display_name":"Podbat: A Novel Genomic Tool Reveals Swr1-Independent H2A.Z Incorporation at Gene Coding Sequences through Epigenetic Meta-Analysis","publication_year":2011,"publication_date":"2011-08-25","ids":{"openalex":"https://openalex.org/W2041752408","doi":"https://doi.org/10.1371/journal.pcbi.1002163","mag":"2041752408","pmid":"https://pubmed.ncbi.nlm.nih.gov/21901086"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1002163","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002163","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002163&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002163&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053397836","display_name":"Laia Sadeghi","orcid":"https://orcid.org/0000-0002-8157-4852"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Laia Sadeghi","raw_affiliation_strings":["Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN"],"affiliations":[{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075285361","display_name":"Carolina Bonilla","orcid":"https://orcid.org/0000-0002-9972-6383"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Carolina Bonilla","raw_affiliation_strings":["Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN"],"affiliations":[{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046713045","display_name":"Annelie Str\u00e5lfors","orcid":"https://orcid.org/0000-0002-6540-1361"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Annelie Str\u00e5lfors","raw_affiliation_strings":["Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN"],"affiliations":[{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019244899","display_name":"Karl Ekwall","orcid":"https://orcid.org/0000-0002-3029-4041"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Karl Ekwall","raw_affiliation_strings":["Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN"],"affiliations":[{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038842561","display_name":"J. Peter Svensson","orcid":"https://orcid.org/0000-0002-5863-6250"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"J. Peter Svensson","raw_affiliation_strings":["Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN"],"affiliations":[{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, Sweden","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Department of Biosciences and Nutrition, Karolinska Institutet, Huddinge, SWEDEN","institution_ids":["https://openalex.org/I28166907"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5038842561"],"corresponding_institution_ids":["https://openalex.org/I28166907"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.8677,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.85086919,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"7","issue":"8","first_page":"e1002163","last_page":"e1002163"},"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/T10269","display_name":"Epigenetics and DNA Methylation","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/T11482","display_name":"RNA modifications and cancer","score":0.9987000226974487,"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/epigenomics","display_name":"Epigenomics","score":0.8112139105796814},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.7100681066513062},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.7085171937942505},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6934719085693359},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6472349166870117},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.574288010597229},{"id":"https://openalex.org/keywords/histone","display_name":"Histone","score":0.5524781346321106},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5188257098197937},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.47285130620002747},{"id":"https://openalex.org/keywords/enhancer","display_name":"Enhancer","score":0.4499850273132324},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.23675072193145752},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.1316351294517517}],"concepts":[{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.8112139105796814},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.7100681066513062},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.7085171937942505},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6934719085693359},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6472349166870117},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.574288010597229},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.5524781346321106},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5188257098197937},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.47285130620002747},{"id":"https://openalex.org/C111936080","wikidata":"https://www.wikidata.org/wiki/Q913367","display_name":"Enhancer","level":4,"score":0.4499850273132324},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.23675072193145752},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.1316351294517517}],"mesh":[{"descriptor_ui":"D000251","descriptor_name":"Adenosine Triphosphatases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000251","descriptor_name":"Adenosine Triphosphatases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000251","descriptor_name":"Adenosine Triphosphatases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000251","descriptor_name":"Adenosine Triphosphatases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004249","descriptor_name":"DNA Damage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004249","descriptor_name":"DNA Damage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004249","descriptor_name":"DNA Damage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004249","descriptor_name":"DNA Damage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006657","descriptor_name":"Histones","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012568","descriptor_name":"Schizosaccharomyces","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012568","descriptor_name":"Schizosaccharomyces","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012568","descriptor_name":"Schizosaccharomyces","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012568","descriptor_name":"Schizosaccharomyces","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016681","descriptor_name":"Genome, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016681","descriptor_name":"Genome, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016681","descriptor_name":"Genome, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016681","descriptor_name":"Genome, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D042002","descriptor_name":"Chromatin Assembly and Disassembly","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042002","descriptor_name":"Chromatin Assembly and Disassembly","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042002","descriptor_name":"Chromatin Assembly and Disassembly","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042002","descriptor_name":"Chromatin Assembly and Disassembly","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1002163","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002163","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002163&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:21901086","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21901086","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:RePEc:plo:pcbi00:1002163","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002163","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3161910","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3161910","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.289.5763","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.289.5763","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/99/3f/PLoS_Comput_Biol_2011_Aug_25_7(8)_e1002163.tar.gz","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:6e007d9f107140c78e1103c52707aa8b","is_oa":true,"landing_page_url":"https://doaj.org/article/6e007d9f107140c78e1103c52707aa8b","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":"PLoS Computational Biology, Vol 7, Iss 8, p e1002163 (2011)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/133943","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Podbat_A_Novel_Genomic_Tool_Reveals_Swr1_Independent_H2A_Z_Incorporation_at_Gene_Coding_Sequences_through_Epigenetic_Meta_Analysis/133943","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1002163","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002163","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002163&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321491","display_name":"Cancerfonden","ror":"https://ror.org/0527jb766"},{"id":"https://openalex.org/F4320322581","display_name":"Vetenskapsr\u00e5det","ror":"https://ror.org/03zttf063"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2041752408.pdf","grobid_xml":"https://content.openalex.org/works/W2041752408.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1967011539","https://openalex.org/W1984522029","https://openalex.org/W1987144436","https://openalex.org/W1988263223","https://openalex.org/W1993069558","https://openalex.org/W2002191146","https://openalex.org/W2015468077","https://openalex.org/W2027950141","https://openalex.org/W2029388127","https://openalex.org/W2039564969","https://openalex.org/W2042368221","https://openalex.org/W2042688172","https://openalex.org/W2055684843","https://openalex.org/W2063657993","https://openalex.org/W2064243840","https://openalex.org/W2065700634","https://openalex.org/W2068193616","https://openalex.org/W2074812841","https://openalex.org/W2081150563","https://openalex.org/W2081366120","https://openalex.org/W2086699924","https://openalex.org/W2087948561","https://openalex.org/W2110033136","https://openalex.org/W2127766785","https://openalex.org/W2134809769","https://openalex.org/W2137683543","https://openalex.org/W2152710395","https://openalex.org/W2159065218","https://openalex.org/W2162237438","https://openalex.org/W2167839606","https://openalex.org/W2168783124"],"related_works":["https://openalex.org/W2113330652","https://openalex.org/W2061914098","https://openalex.org/W4393004084","https://openalex.org/W2017030427","https://openalex.org/W3160486573","https://openalex.org/W2098986187","https://openalex.org/W4318473910","https://openalex.org/W98379584","https://openalex.org/W2413824894","https://openalex.org/W2055566470"],"abstract_inverted_index":{"Epigenetic":[0],"regulation":[1,213],"consists":[2],"of":[3,6,15,39,52,64,88,92,115,118,138,146,162,199,206,214,225],"a":[4,37,70,152,271],"multitude":[5],"different":[7,40],"modifications":[8,57,94],"that":[9,78],"determine":[10],"active":[11],"and":[12,50,58,75,84,104,184,216,261],"inactive":[13],"states":[14],"chromatin.":[16],"Conditions":[17],"such":[18],"as":[19,268,270],"cell":[20],"differentiation":[21],"or":[22,122,283],"exposure":[23],"to":[24,60,100,134,195],"environmental":[25],"stress":[26,218,239],"require":[27],"concerted":[28],"changes":[29],"in":[30,176,202,211,240],"gene":[31],"expression.":[32],"To":[33],"interpret":[34],"epigenomics":[35,106],"data,":[36],"spectrum":[38],"interconnected":[41],"datasets":[42,131],"is":[43,243],"needed,":[44],"ranging":[45],"from":[46,81,189,249],"the":[47,61,89,136,139,160,172,196,203,212,226,253,266],"genome":[48,116,154],"sequence":[49],"positions":[51],"histones,":[53],"together":[54,179],"with":[55,151,180],"their":[56],"variants,":[59],"transcriptional":[62],"output":[63],"genomic":[65],"regions.":[66],"Here":[67],"we":[68],"present":[69],"tool,":[71],"Podbat":[72,96,111,163,242,278],"(Positioning":[73],"database":[74],"analysis":[76],"tool),":[77],"incorporates":[79],"data":[80,170,188,260],"various":[82],"sources":[83],"allows":[85,112],"detailed":[86],"dissection":[87],"entire":[90],"range":[91],"chromatin":[93,141],"simultaneously.":[95],"can":[97,155],"be":[98,156],"used":[99],"analyze,":[101],"visualize,":[102],"store":[103],"share":[105],"data.":[107],"Among":[108],"other":[109,181],"functions,":[110],"data-driven":[113],"determination":[114],"regions":[117,205],"differential":[119],"protein":[120],"occupancy":[121],"RNA":[123],"expression":[124],"using":[125],"Hidden":[126],"Markov":[127],"Models.":[128],"Comparisons":[129],"between":[130],"are":[132,263],"facilitated":[133],"enable":[135],"study":[137],"comprehensive":[140],"modification":[142],"system":[143],"simultaneously,":[144],"irrespective":[145],"data-generating":[147],"technique.":[148],"Any":[149],"organism":[150],"sequenced":[153],"accommodated.":[157],"We":[158,230],"exemplify":[159],"power":[161],"by":[164],"reanalyzing":[165],"all":[166],"to-date":[167],"published":[168],"genome-wide":[169],"for":[171,235,273],"histone":[173,182],"variant":[174],"H2A.Z":[175,200,236],"fission":[177],"yeast":[178],"marks":[183],"also":[185],"phenotypic":[186],"response":[187],"several":[190],"sources.":[191],"This":[192,220],"meta-analysis":[193],"led":[194],"unexpected":[197],"finding":[198],"incorporation":[201,221],"coding":[204],"genes":[207],"encoding":[208],"proteins":[209],"involved":[210],"meiosis":[215],"genotoxic":[217,238],"responses.":[219],"was":[222],"partly":[223],"independent":[224],"H2A.Z-incorporating":[227],"remodeller":[228],"Swr1.":[229],"verified":[231],"an":[232],"Swr1-independent":[233],"role":[234],"following":[237],"vivo.":[241],"open":[244],"source":[245],"software":[246],"freely":[247],"downloadable":[248],"www.podbat.org,":[250],"distributed":[251],"under":[252],"GNU":[254],"LGPL":[255],"license.":[256],"User":[257],"manuals,":[258],"test":[259],"instructions":[262],"available":[264],"at":[265],"website,":[267],"well":[269],"repository":[272],"third":[274],"party-developed":[275],"plug-in":[276],"modules.":[277],"requires":[279],"Java":[280],"version":[281],"1.6":[282],"higher.":[284]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":7},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":5}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}