{"id":"https://openalex.org/W4295778542","doi":"https://doi.org/10.1016/j.csbj.2022.08.071","title":"Molecular mechanism of UV damage modulation in nucleosomes","display_name":"Molecular mechanism of UV damage modulation in nucleosomes","publication_year":2022,"publication_date":"2022-01-01","ids":{"openalex":"https://openalex.org/W4295778542","doi":"https://doi.org/10.1016/j.csbj.2022.08.071","pmid":"https://pubmed.ncbi.nlm.nih.gov/36212527","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/9529667"},"language":"en","primary_location":{"id":"doi:10.1016/j.csbj.2022.08.071","doi":"https://doi.org/10.1016/j.csbj.2022.08.071","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.csbj.2022.08.071","pdf_url":"https://www.sciencedirect.com/science/article/pii/S2001037022004056/pdf","source":{"id":"https://openalex.org/S2764539591","display_name":"Computational and Structural Biotechnology Journal","issn_l":"2001-0370","issn":["2001-0370"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-c","doyens","jufo-1","ki-jl-1","norway-1","oarl","poland-100","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational and Structural Biotechnology Journal","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.sciencedirect.com/science/article/pii/S2001037022004056/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113835308","display_name":"Bastian Stark","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I72951846","display_name":"Washington State University","ror":"https://ror.org/05dk0ce17","country_code":"US","type":"education","lineage":["https://openalex.org/I72951846"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bastian Stark","raw_affiliation_strings":["School of Molecular Biosciences, Washington State University, Pullman, WA 99164, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Molecular Biosciences, Washington State University, Pullman, WA 99164, USA","institution_ids":["https://openalex.org/I72951846"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067232575","display_name":"Gregory M.K. Poon","orcid":"https://orcid.org/0000-0001-5107-9458","observed_orcids":["https://orcid.org/0000-0001-5107-9458"]},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gregory M.K. Poon","raw_affiliation_strings":["Department of Chemistry and Center for Diagnostics and Therapeutics, Georgia State University, Atlanta, GA 30303, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Center for Diagnostics and Therapeutics, Georgia State University, Atlanta, GA 30303, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052037019","display_name":"John J. Wyrick","orcid":"https://orcid.org/0000-0002-7911-3803","observed_orcids":["https://orcid.org/0000-0002-7911-3803"]},"institutions":[{"id":"https://openalex.org/I72951846","display_name":"Washington State University","ror":"https://ror.org/05dk0ce17","country_code":"US","type":"education","lineage":["https://openalex.org/I72951846"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"John J. Wyrick","raw_affiliation_strings":["Center for Reproductive Biology, Washington State University, Pullman, WA 99164, USA","School of Molecular Biosciences, Washington State University, Pullman, WA 99164, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Reproductive Biology, Washington State University, Pullman, WA 99164, USA","institution_ids":["https://openalex.org/I72951846"]},{"raw_affiliation_string":"School of Molecular Biosciences, Washington State University, Pullman, WA 99164, USA","institution_ids":["https://openalex.org/I72951846"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5052037019"],"corresponding_institution_ids":["https://openalex.org/I72951846"],"apc_list":{"value":2800,"currency":"USD","value_usd":2800},"apc_paid":{"value":2800,"currency":"USD","value_usd":2800},"fwci":0.7344,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.64546358,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":98},"biblio":{"volume":"20","issue":null,"first_page":"5393","last_page":"5400"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.6195999979972839,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.6195999979972839,"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":0.27149999141693115,"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/T10123","display_name":"DNA Repair Mechanisms","score":0.06319999694824219,"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/nucleosome","display_name":"nucleosome","score":0.7120000123977661},{"id":"https://openalex.org/keywords/uv-damage","display_name":"UV damage","score":0.7039999961853027},{"id":"https://openalex.org/keywords/cyclobutane-pyrimidine-dimers","display_name":"cyclobutane pyrimidine dimers","score":0.9959999918937683},{"id":"https://openalex.org/keywords/histone-octamer","display_name":"histone octamer","score":0.7480000257492065},{"id":"https://openalex.org/keywords/dna-minor-groove","display_name":"DNA minor groove","score":0.8270000219345093},{"id":"https://openalex.org/keywords/dna-bending","display_name":"DNA bending","score":0.7760000228881836},{"id":"https://openalex.org/keywords/dna-conformation","display_name":"DNA conformation","score":0.8299999833106995},{"id":"https://openalex.org/keywords/chromatin","display_name":"chromatin","score":0.6269999742507935},{"id":"https://openalex.org/keywords/uv-mutagenesis","display_name":"UV mutagenesis","score":0.9399999976158142},{"id":"https://openalex.org/keywords/nucleosome-structure","display_name":"nucleosome structure","score":0.4169999957084656}],"concepts":[{"id":"https://openalex.org/C173681060","wikidata":"https://www.wikidata.org/wiki/Q5773169","display_name":"Histone octamer","level":5,"score":0.9138830900192261},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.8832613229751587},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.7133179306983948},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.670066237449646},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.6365658044815063},{"id":"https://openalex.org/C3019303373","wikidata":"https://www.wikidata.org/wiki/Q60535862","display_name":"Minor groove","level":3,"score":0.5229526162147522},{"id":"https://openalex.org/C167975912","wikidata":"https://www.wikidata.org/wiki/Q1018722","display_name":"Pyrimidine dimer","level":4,"score":0.5124152302742004},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.468711793422699},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.4572349488735199},{"id":"https://openalex.org/C193646685","wikidata":"https://www.wikidata.org/wiki/Q1826830","display_name":"Linker DNA","level":5,"score":0.43154090642929077},{"id":"https://openalex.org/C16318435","wikidata":"https://www.wikidata.org/wiki/Q149299","display_name":"Mutagenesis","level":4,"score":0.4203892946243286},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3820982277393341},{"id":"https://openalex.org/C143425029","wikidata":"https://www.wikidata.org/wiki/Q5205747","display_name":"DNA damage","level":3,"score":0.36283668875694275},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2539777457714081},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.24175798892974854},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1016/j.csbj.2022.08.071","doi":"https://doi.org/10.1016/j.csbj.2022.08.071","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.csbj.2022.08.071","pdf_url":"https://www.sciencedirect.com/science/article/pii/S2001037022004056/pdf","source":{"id":"https://openalex.org/S2764539591","display_name":"Computational and Structural Biotechnology Journal","issn_l":"2001-0370","issn":["2001-0370"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-c","doyens","jufo-1","ki-jl-1","norway-1","oarl","poland-100","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational and Structural Biotechnology Journal","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9529667","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9529667","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,"listed_in":[],"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":"Comput Struct Biotechnol J","raw_type":"Text"},{"id":"pmid:36212527","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36212527","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,"listed_in":[],"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":"Computational and structural biotechnology journal","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:1f2880eb5ab94929ac60e481f9bf3fbd","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/1f2880eb5ab94929ac60e481f9bf3fbd","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Computational and Structural Biotechnology Journal, Vol 20, Iss , Pp 5393-5400 (2022)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1016/j.csbj.2022.08.071","doi":"https://doi.org/10.1016/j.csbj.2022.08.071","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.csbj.2022.08.071","pdf_url":"https://www.sciencedirect.com/science/article/pii/S2001037022004056/pdf","source":{"id":"https://openalex.org/S2764539591","display_name":"Computational and Structural Biotechnology Journal","issn_l":"2001-0370","issn":["2001-0370"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-c","doyens","jufo-1","ki-jl-1","norway-1","oarl","poland-100","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational and Structural Biotechnology Journal","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G5026347969","display_name":null,"funder_award_id":"MCB 2028902","funder_id":"https://openalex.org/F4320337397","funder_display_name":"Division of Molecular and Cellular Biosciences"},{"id":"https://openalex.org/G5044559135","display_name":"Direct chemical control of the hematopoietic master transcription factor PU.1","funder_award_id":"R01HL155178","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5444624731","display_name":"Folded state dynamics and hydration in transcriptional regulation","funder_award_id":"2028902","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6966725764","display_name":"A cellular osmotic pressure sensor","funder_award_id":"R21GM137160","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G822426092","display_name":null,"funder_award_id":"HL155178","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G9000874536","display_name":"Regulation of DNA Excision Repair in Chromatin","funder_award_id":"R01ES028698","funder_id":"https://openalex.org/F4320337361","funder_display_name":"National Institute of Environmental Health Sciences"},{"id":"https://openalex.org/G9000914417","display_name":"Genome-wide analysis of the formation and mutagenesis of atypical UV photoproducts in skin cancer","funder_award_id":"R01ES032814","funder_id":"https://openalex.org/F4320337361","funder_display_name":"National Institute of Environmental Health Sciences"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337361","display_name":"National Institute of Environmental Health Sciences","ror":"https://ror.org/00j4k1h63"},{"id":"https://openalex.org/F4320337397","display_name":"Division of Molecular and Cellular Biosciences","ror":"https://ror.org/002jdaq33"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4295778542.pdf","grobid_xml":"https://content.openalex.org/works/W4295778542.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1491876634","https://openalex.org/W1554069754","https://openalex.org/W1992005588","https://openalex.org/W1992294575","https://openalex.org/W2005110328","https://openalex.org/W2012669304","https://openalex.org/W2015525976","https://openalex.org/W2032320097","https://openalex.org/W2038445174","https://openalex.org/W2047758011","https://openalex.org/W2055167460","https://openalex.org/W2061111901","https://openalex.org/W2066331027","https://openalex.org/W2067301744","https://openalex.org/W2099321582","https://openalex.org/W2144792857","https://openalex.org/W2166612340","https://openalex.org/W2505939414","https://openalex.org/W2527599664","https://openalex.org/W2751246228","https://openalex.org/W2810981777","https://openalex.org/W2899106157","https://openalex.org/W2903433345","https://openalex.org/W2911872747","https://openalex.org/W2917258609","https://openalex.org/W2924903871","https://openalex.org/W2949384760","https://openalex.org/W2959053725","https://openalex.org/W2983095819","https://openalex.org/W2997804167","https://openalex.org/W3115204268","https://openalex.org/W3197893386","https://openalex.org/W4200440647"],"related_works":["https://openalex.org/W4379375151","https://openalex.org/W1541581440","https://openalex.org/W2809135219","https://openalex.org/W2081059918","https://openalex.org/W2285777148","https://openalex.org/W2614589724","https://openalex.org/W1986936013","https://openalex.org/W2903433345","https://openalex.org/W4322618112","https://openalex.org/W2505939414"],"abstract_inverted_index":{"Exposure":[0],"to":[1,91,143,153],"ultraviolet":[2],"(UV)":[3],"light":[4],"causes":[5],"the":[6,26,47,53,64,70,75,103,126,131,162],"formation":[7,23,41,60,146,155,171],"of":[8,29,169],"mutagenic":[9],"cyclobutane":[10],"pyrimidine":[11],"dimers":[12],"(CPDs)":[13],"in":[14,24,95,106,113,120,135,175],"cellular":[15],"DNA.":[16,177],"Previous":[17],"studies":[18],"have":[19],"revealed":[20],"that":[21,111,125],"CPD":[22,40,59,104,118,154,170],"nucleosomes,":[25],"building":[27],"blocks":[28],"chromatin,":[30],"shows":[31],"a":[32],"striking":[33],"\u223c10":[34],"base":[35],"pair":[36],"(bp)":[37],"periodic":[38,167],"pattern.":[39],"is":[42,82],"suppressed":[43],"at":[44,61,147,156],"positions":[45,62,149],"where":[46,63],"DNA":[48,96,114,128,136],"minor":[49,65],"groove":[50,66],"faces":[51,67],"toward":[52],"histone":[54,71,132],"octamer":[55,72,133],"(minor-in)":[56],"and":[57,150,172],"elevated":[58],"away":[68],"from":[69],"(minor-out).":[73],"However,":[74],"molecular":[76,163],"mechanism":[77,164],"underlying":[78],"this":[79],"nucleosome":[80,89],"photofootprint":[81],"unclear.":[83],"Here,":[84],"we":[85,123],"analyzed":[86],"\u223c180":[87],"high-resolution":[88],"structures":[90],"characterize":[92],"whether":[93],"differences":[94,112],"mobility":[97,115],"or":[98],"conformation":[99],"are":[100],"responsible":[101,165],"for":[102,166],"modulation":[105,119,168],"nucleosomes.":[107],"Our":[108],"results":[109,134],"indicate":[110],"cannot":[116],"explain":[117],"nucleosome.":[121],"Instead,":[122],"find":[124],"sharp":[127],"bending":[129],"around":[130],"conformations":[137],"with":[138],"structural":[139],"parameters":[140],"more":[141,151],"susceptible":[142],"UV":[144,173],"damage":[145],"minor-out":[148],"resistant":[152],"minor-in":[157],"positions.":[158],"This":[159],"analysis":[160],"reveals":[161],"mutagenesis":[174],"nucleosomal":[176]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2}],"updated_date":"2026-10-30T12:39:25.321706","created_date":"2022-09-15T00:00:00"}