{"id":"https://openalex.org/W2901001001","doi":"https://doi.org/10.1101/478396","title":"Polymorphic 30-nm Chromatin Fiber and Linking Number Paradox. Evidence for the Occurrence of Two Distinct Topoisomers","display_name":"Polymorphic 30-nm Chromatin Fiber and Linking Number Paradox. Evidence for the Occurrence of Two Distinct Topoisomers","publication_year":2018,"publication_date":"2018-11-25","ids":{"openalex":"https://openalex.org/W2901001001","doi":"https://doi.org/10.1101/478396","mag":"2901001001"},"language":"en","primary_location":{"id":"doi:10.1101/478396","doi":"https://doi.org/10.1101/478396","is_oa":true,"landing_page_url":"https://doi.org/10.1101/478396","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2018/11/25/478396.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2018/11/25/478396.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044072951","display_name":"Davood Norouzi","orcid":"https://orcid.org/0000-0003-2755-935X","observed_orcids":["https://orcid.org/0000-0003-2755-935X"]},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210149717","display_name":"Center for Cancer Research","ror":"https://ror.org/05bjen692","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Davood Norouzi","raw_affiliation_strings":["Laboratory of Cell Biology, CCR, National Cancer Institute, NIH, Bethesda, MD 20892, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Cell Biology, CCR, National Cancer Institute, NIH, Bethesda, MD 20892, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029327520","display_name":"Victor B. Zhurkin","orcid":"https://orcid.org/0000-0002-3589-1523","observed_orcids":["https://orcid.org/0000-0002-3589-1523"]},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210149717","display_name":"Center for Cancer Research","ror":"https://ror.org/05bjen692","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Victor B. Zhurkin","raw_affiliation_strings":["Laboratory of Cell Biology, CCR, National Cancer Institute, NIH, Bethesda, MD 20892, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Cell Biology, CCR, National Cancer Institute, NIH, Bethesda, MD 20892, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5029327520"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9965999722480774,"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":0.9965999722480774,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.0010000000474974513,"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/T11841","display_name":"Nuclear Structure and Function","score":0.0007999999797903001,"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/30-nm-chromatin-fiber","display_name":"30 nm chromatin fiber","score":0.9869999885559082},{"id":"https://openalex.org/keywords/dna-linking-number","display_name":"DNA linking number","score":0.7639999985694885},{"id":"https://openalex.org/keywords/chromatin-topology","display_name":"chromatin topology","score":0.6840000152587891},{"id":"https://openalex.org/keywords/dna-supercoiling","display_name":"DNA supercoiling","score":0.8769999742507935},{"id":"https://openalex.org/keywords/transcription","display_name":"transcription","score":0.8399999737739563},{"id":"https://openalex.org/keywords/dna-folding","display_name":"DNA folding","score":0.574999988079071},{"id":"https://openalex.org/keywords/higher-order-chromatin-structure","display_name":"higher-order chromatin structure","score":0.8140000104904175}],"concepts":[{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.8739904165267944},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.817717432975769},{"id":"https://openalex.org/C193646685","wikidata":"https://www.wikidata.org/wiki/Q1826830","display_name":"Linker DNA","level":5,"score":0.6772089004516602},{"id":"https://openalex.org/C158456008","wikidata":"https://www.wikidata.org/wiki/Q412639","display_name":"DNA supercoil","level":4,"score":0.5836293697357178},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5188173651695251},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5162444114685059},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.47262975573539734},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.45742642879486084},{"id":"https://openalex.org/C519885992","wikidata":"https://www.wikidata.org/wiki/Q161","display_name":"Fiber","level":2,"score":0.41839170455932617},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.4145759344100952},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.38321900367736816},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.28133463859558105},{"id":"https://openalex.org/C73573662","wikidata":"https://www.wikidata.org/wiki/Q130996","display_name":"DNA replication","level":3,"score":0.10489019751548767},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1101/478396","doi":"https://doi.org/10.1101/478396","is_oa":true,"landing_page_url":"https://doi.org/10.1101/478396","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2018/11/25/478396.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.1101/478396","doi":"https://doi.org/10.1101/478396","is_oa":true,"landing_page_url":"https://doi.org/10.1101/478396","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2018/11/25/478396.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2901001001.pdf","grobid_xml":"https://content.openalex.org/works/W2901001001.grobid-xml"},"referenced_works_count":60,"referenced_works":["https://openalex.org/W13874100","https://openalex.org/W1660678623","https://openalex.org/W1913904748","https://openalex.org/W1969261142","https://openalex.org/W1971670546","https://openalex.org/W1976206664","https://openalex.org/W1977096177","https://openalex.org/W1983159345","https://openalex.org/W1988997227","https://openalex.org/W1992005588","https://openalex.org/W1993822465","https://openalex.org/W2003569868","https://openalex.org/W2004837297","https://openalex.org/W2012525958","https://openalex.org/W2013340257","https://openalex.org/W2013571070","https://openalex.org/W2015128055","https://openalex.org/W2030023744","https://openalex.org/W2036058906","https://openalex.org/W2038132544","https://openalex.org/W2042930277","https://openalex.org/W2052842503","https://openalex.org/W2058940094","https://openalex.org/W2062728251","https://openalex.org/W2063629343","https://openalex.org/W2073026107","https://openalex.org/W2073504534","https://openalex.org/W2076154138","https://openalex.org/W2078526277","https://openalex.org/W2083247529","https://openalex.org/W2089052645","https://openalex.org/W2090037139","https://openalex.org/W2091031681","https://openalex.org/W2093351957","https://openalex.org/W2103933992","https://openalex.org/W2105351484","https://openalex.org/W2106863384","https://openalex.org/W2136144150","https://openalex.org/W2136541305","https://openalex.org/W2138654920","https://openalex.org/W2144123178","https://openalex.org/W2149917410","https://openalex.org/W2154981196","https://openalex.org/W2165451373","https://openalex.org/W2166760304","https://openalex.org/W2170753720","https://openalex.org/W2267962174","https://openalex.org/W2282772041","https://openalex.org/W2553449527","https://openalex.org/W2564237126","https://openalex.org/W2732484549","https://openalex.org/W2739969873","https://openalex.org/W2751246228","https://openalex.org/W2782774915","https://openalex.org/W2810750536","https://openalex.org/W2810921664","https://openalex.org/W2889483899","https://openalex.org/W2892654436","https://openalex.org/W2949529740","https://openalex.org/W2953331470"],"related_works":["https://openalex.org/W3124332276","https://openalex.org/W4250407060","https://openalex.org/W2136541305","https://openalex.org/W1997510940","https://openalex.org/W2122539298","https://openalex.org/W4413884187","https://openalex.org/W2949529740","https://openalex.org/W1861851497","https://openalex.org/W1967560809","https://openalex.org/W1977302271"],"abstract_inverted_index":{"Abstract":[0],"We":[1,95,158],"discuss":[2],"various":[3],"models":[4],"of":[5,8,18,30,100,110,119,164,212,225,231],"spatial":[6],"organization":[7],"the":[9,31,36,40,75,108,130,169,188],"30-nm":[10],"fiber":[11,32,215],"that":[12,97,187],"remains":[13],"enigmatic":[14],"despite":[15],"40":[16],"years":[17],"intensive":[19],"studies.":[20],"Using":[21],"computer":[22],"simulations,":[23],"we":[24,185],"found":[25],"two":[26,161,213],"topologically":[27,235],"different":[28,117,229,236],"families":[29],"conformations":[33],"distinguished":[34],"by":[35],"linker":[37],"length,":[38],"L:":[39],"fibers":[41,66,102,166],"with":[42,67,77,91,148,191,228],"L":[43],"=":[44],"{10":[45,49,131],"n":[46,50,132],"}":[47],"and":[48,62,123,174],"+5}":[51,133],"bp":[52],"have":[53],"DNA":[54,120,134,177],"linking":[55],"numbers":[56],"per":[57],"nucleosome":[58,89,170],"DLk":[59,68,78,192],"\u00bb":[60,69,79,193],"\u20131.5":[61,70],"\u20131.0,":[63],"respectively.":[64],"The":[65],"were":[71,85],"observed":[72],"earlier,":[73],"while":[74],"topoisomer":[76,190],"\u20131.0":[80,194],"is":[81,113,146,206],"novel.":[82],"These":[83],"predictions":[84],"confirmed":[86],"for":[87,151,210],"circular":[88],"arrays":[90],"precisely":[92],"positioned":[93],"nucleosomes.":[94],"suggest":[96],"topological":[98],"polymorphism":[99],"chromatin":[101,142,165],"may":[103,220],"play":[104],"a":[105,222],"role":[106],"in":[107,172,179],"process":[109],"transcription,":[111],"which":[112],"known":[114],"to":[115,138,156,196,201,233],"generate":[116],"levels":[118,230],"supercoiling":[121],"upstream":[122],"downstream":[124],"from":[125,154],"RNA":[126],"polymerase.":[127],"In":[128,182],"particular,":[129],"linkers":[135],"are":[136],"likely":[137],"produce":[139],"transcriptionally":[140],"competent":[141],"structures.":[143,238],"This":[144,205],"hypothesis":[145],"consistent":[147],"available":[149],"data":[150],"several":[152],"eukaryotes,":[153],"yeast":[155],"human.":[157],"also":[159],"analyzed":[160],"recent":[162],"studies":[163],"\u2013":[167],"on":[168,175],"crosslinking":[171],"vitro,":[173],"radioprobing":[176],"folding":[178],"human":[180],"cells.":[181],"both":[183],"cases,":[184],"show":[186],"novel":[189],"has":[195],"be":[197],"taken":[198],"into":[199],"account":[200],"interpret":[202],"experimental":[203],"data.":[204],"yet":[207],"another":[208],"evidence":[209],"occurrence":[211],"distinct":[214],"topoisomers.":[216],"Potentially,":[217],"our":[218],"findings":[219],"reflect":[221],"general":[223],"tendency":[224],"chromosomal":[226],"domains":[227],"transcription":[232],"retain":[234],"higher-order":[237]},"counts_by_year":[{"year":2021,"cited_by_count":1}],"updated_date":"2026-08-08T07:41:36.138363","created_date":"2018-11-29T00:00:00"}
