{"id":"https://openalex.org/W4391232066","doi":"https://doi.org/10.1093/bib/bbad521","title":"epidecodeR: a functional exploration tool for epigenetic and epitranscriptomic regulation","display_name":"epidecodeR: a functional exploration tool for epigenetic and epitranscriptomic regulation","publication_year":2024,"publication_date":"2024-01-22","ids":{"openalex":"https://openalex.org/W4391232066","doi":"https://doi.org/10.1093/bib/bbad521","pmid":"https://pubmed.ncbi.nlm.nih.gov/38271482"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad521","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad521","pdf_url":"https://academic.oup.com/bib/article-pdf/25/2/bbad521/56346932/bbad521.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bib/article-pdf/25/2/bbad521/56346932/bbad521.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5087522846","display_name":"Kandarp Joshi","orcid":"https://orcid.org/0000-0002-2153-0110"},"institutions":[{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Kandarp Joshi","raw_affiliation_strings":["Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University , Yoshida Ushinomiya-cho, Sakyo-ku, Kyoto, 606-8501 , Japan"],"raw_orcid":"https://orcid.org/0000-0002-2153-0110","affiliations":[{"raw_affiliation_string":"Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University , Yoshida Ushinomiya-cho, Sakyo-ku, Kyoto, 606-8501 , Japan","institution_ids":["https://openalex.org/I22299242"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5001120167","display_name":"Dan O. Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I120250893","display_name":"New York University Abu Dhabi","ror":"https://ror.org/00e5k0821","country_code":"AE","type":"education","lineage":["https://openalex.org/I120250893","https://openalex.org/I57206974"]},{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]},{"id":"https://openalex.org/I4210116810","display_name":"RIKEN Center for Biosystems Dynamics Research","ror":"https://ror.org/023rffy11","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210116810"]}],"countries":["AE","JP"],"is_corresponding":true,"raw_author_name":"Dan O Wang","raw_affiliation_strings":["Center for Biosystems Dynamics Research , RIKEN, 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo 650-0047 , Japan","Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University , Yoshida Ushinomiya-cho, Sakyo-ku, Kyoto, 606-8501 , Japan","New York University Abu Dhabi ,Saadiyat Campus C1-031, Abu Dhabi, United Arab Emirates"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Biosystems Dynamics Research , RIKEN, 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo 650-0047 , Japan","institution_ids":["https://openalex.org/I4210116810"]},{"raw_affiliation_string":"Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University , Yoshida Ushinomiya-cho, Sakyo-ku, Kyoto, 606-8501 , Japan","institution_ids":["https://openalex.org/I22299242"]},{"raw_affiliation_string":"New York University Abu Dhabi ,Saadiyat Campus C1-031, Abu Dhabi, United Arab Emirates","institution_ids":["https://openalex.org/I120250893"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5001120167","https://openalex.org/A5087522846"],"corresponding_institution_ids":["https://openalex.org/I120250893","https://openalex.org/I22299242","https://openalex.org/I4210116810"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.4453,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.60637532,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"25","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":1.0,"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/T11482","display_name":"RNA modifications and cancer","score":1.0,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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":0.9987999796867371,"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":0.7942311763763428},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.665678858757019},{"id":"https://openalex.org/keywords/demethylase","display_name":"Demethylase","score":0.66335529088974},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.643546998500824},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5708799362182617},{"id":"https://openalex.org/keywords/bioconductor","display_name":"Bioconductor","score":0.5459907650947571},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.5427889823913574},{"id":"https://openalex.org/keywords/histone","display_name":"Histone","score":0.49651890993118286},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.46545344591140747},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4455980956554413},{"id":"https://openalex.org/keywords/epigenome","display_name":"Epigenome","score":0.4410879909992218},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.4376178979873657},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.40099674463272095},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3732645511627197},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3541003465652466}],"concepts":[{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.7942311763763428},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.665678858757019},{"id":"https://openalex.org/C2781364455","wikidata":"https://www.wikidata.org/wiki/Q2531584","display_name":"Demethylase","level":4,"score":0.66335529088974},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.643546998500824},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5708799362182617},{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.5459907650947571},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.5427889823913574},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.49651890993118286},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.46545344591140747},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4455980956554413},{"id":"https://openalex.org/C117717151","wikidata":"https://www.wikidata.org/wiki/Q3589155","display_name":"Epigenome","level":5,"score":0.4410879909992218},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.4376178979873657},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.40099674463272095},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3732645511627197},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3541003465652466},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"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":"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":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","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":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","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":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","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":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbad521","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad521","pdf_url":"https://academic.oup.com/bib/article-pdf/25/2/bbad521/56346932/bbad521.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38271482","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38271482","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10810334","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10810334","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10810334/pdf/bbad521.pdf","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbad521","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad521","pdf_url":"https://academic.oup.com/bib/article-pdf/25/2/bbad521/56346932/bbad521.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3153454249","display_name":null,"funder_award_id":"19H05212","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G543219016","display_name":null,"funder_award_id":"19H04907","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G6229976359","display_name":null,"funder_award_id":"21H02580","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G8797950468","display_name":null,"funder_award_id":"18dm0307023h 0001","funder_id":"https://openalex.org/F4320311405","funder_display_name":"Japan Agency for Medical Research and Development"}],"funders":[{"id":"https://openalex.org/F4320311405","display_name":"Japan Agency for Medical Research and Development","ror":"https://ror.org/004rtk039"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4391232066.pdf"},"referenced_works_count":71,"referenced_works":["https://openalex.org/W1967064280","https://openalex.org/W1979594866","https://openalex.org/W1986988560","https://openalex.org/W1989568035","https://openalex.org/W1999432296","https://openalex.org/W2000672459","https://openalex.org/W2015416439","https://openalex.org/W2044117548","https://openalex.org/W2044676948","https://openalex.org/W2053003053","https://openalex.org/W2055237453","https://openalex.org/W2065847836","https://openalex.org/W2077342495","https://openalex.org/W2092390808","https://openalex.org/W2094113855","https://openalex.org/W2104005232","https://openalex.org/W2114532236","https://openalex.org/W2117757143","https://openalex.org/W2142979837","https://openalex.org/W2146512944","https://openalex.org/W2153247544","https://openalex.org/W2153417571","https://openalex.org/W2162727919","https://openalex.org/W2169456326","https://openalex.org/W2175514210","https://openalex.org/W2179438025","https://openalex.org/W2180404227","https://openalex.org/W2271995006","https://openalex.org/W2307041907","https://openalex.org/W2470416207","https://openalex.org/W2493808054","https://openalex.org/W2495793061","https://openalex.org/W2566386603","https://openalex.org/W2591367881","https://openalex.org/W2599186967","https://openalex.org/W2632544498","https://openalex.org/W2767826728","https://openalex.org/W2772792536","https://openalex.org/W2791759760","https://openalex.org/W2808493599","https://openalex.org/W2883696354","https://openalex.org/W2946834045","https://openalex.org/W2952990620","https://openalex.org/W2960264922","https://openalex.org/W2990551615","https://openalex.org/W2992958546","https://openalex.org/W2995898384","https://openalex.org/W2999315298","https://openalex.org/W3002548464","https://openalex.org/W3007397831","https://openalex.org/W3018652869","https://openalex.org/W3029046617","https://openalex.org/W3034923646","https://openalex.org/W3041078766","https://openalex.org/W3081143873","https://openalex.org/W3087500438","https://openalex.org/W3087694046","https://openalex.org/W3116809349","https://openalex.org/W3127276189","https://openalex.org/W3163683706","https://openalex.org/W3199280095","https://openalex.org/W3200750092","https://openalex.org/W3201370620","https://openalex.org/W4295074001","https://openalex.org/W4310062882","https://openalex.org/W4313479633","https://openalex.org/W4315707342","https://openalex.org/W4385897926","https://openalex.org/W4399638148","https://openalex.org/W6723528669","https://openalex.org/W6805621715"],"related_works":["https://openalex.org/W2424092526","https://openalex.org/W2507790420","https://openalex.org/W2212710981","https://openalex.org/W2795223073","https://openalex.org/W4200376839","https://openalex.org/W2151543286","https://openalex.org/W2418239907","https://openalex.org/W2142890267","https://openalex.org/W4280600268","https://openalex.org/W2474086683"],"abstract_inverted_index":{"Recent":[0],"technological":[1],"advances":[2],"in":[3,21,31,57,75,110,125,133,169,172],"sequencing":[4],"DNA":[5],"and":[6,16,39,63,106,131,142,144,166],"RNA":[7],"modifications":[8,168],"using":[9],"high-throughput":[10],"platforms":[11],"have":[12,34],"generated":[13,72],"vast":[14],"epigenomic":[15,85],"epitranscriptomic":[17,87],"datasets":[18],"whose":[19],"power":[20],"transforming":[22],"life":[23],"science":[24],"is":[25,66,99,175],"yet":[26],"fully":[27],"unleashed.":[28],"Currently":[29],"available":[30,176],"silico":[32],"methods":[33],"facilitated":[35],"the":[36,47,58,102,107,117,127,151,160],"identification,":[37],"positioning":[38],"quantitative":[40],"comparisons":[41],"of":[42,61,89,113,119,129,162],"individual":[43],"modification":[44],"sites.":[45],"However,":[46],"essential":[48],"challenge":[49],"to":[50,54,80,158],"link":[51],"specific":[52],"'epi-marks'":[53],"gene":[55,94,135,146],"expression":[56,95,112,136,147],"particular":[59],"context":[60],"cellular":[62],"biological":[64],"processes":[65],"unmet.":[67],"To":[68],"fast-track":[69],"exploration,":[70],"we":[71],"epidecodeR":[73,157,174],"implemented":[74],"R,":[76],"which":[77],"allows":[78],"biologists":[79],"quickly":[81],"survey":[82],"whether":[83],"an":[84,180],"or":[86],"status":[88],"their":[90],"interest":[91],"potentially":[92],"influences":[93],"responses.":[96],"The":[97],"evaluation":[98],"based":[100],"on":[101],"cumulative":[103],"distribution":[104],"function":[105],"statistical":[108],"significance":[109],"differential":[111],"genes":[114],"grouped":[115],"by":[116],"number":[118],"'epi-marks'.":[120],"This":[121],"tool":[122],"proves":[123],"useful":[124],"predicting":[126],"role":[128],"H3K9ac":[130],"H3K27ac":[132],"associated":[134],"after":[137,148],"knocking":[138,149],"down":[139],"deacetylases":[140],"FAM60A":[141],"SDS3":[143],"N6-methyl-adenosine-associated":[145],"out":[150],"reader":[152],"proteins.":[153],"We":[154],"further":[155],"used":[156],"explore":[159],"effectiveness":[161],"demethylase":[163],"FTO":[164],"inhibitors":[165],"histone-associated":[167],"drug":[170],"abuse":[171],"animals.":[173],"for":[177],"downloading":[178],"as":[179],"R":[181],"package":[182],"at":[183],"https://bioconductor.riken.jp/packages/3.13/bioc/html/epidecodeR.html.":[184]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2022,"cited_by_count":1}],"updated_date":"2025-12-25T23:11:45.687758","created_date":"2025-10-10T00:00:00"}
