DC Field | Value | Language |
---|---|---|
dc.contributor.author | Joo, Jaegeon | ko |
dc.contributor.author | Cho, Sunghyun | ko |
dc.contributor.author | Hong, Sukbum | ko |
dc.contributor.author | Min, Sunwoo | ko |
dc.contributor.author | Kim, Kyukwang | ko |
dc.contributor.author | Kumar, Rajeev | ko |
dc.contributor.author | Choi, Jeong-Mo | ko |
dc.contributor.author | Shin, Yongdae | ko |
dc.contributor.author | Jung, Inkyung | ko |
dc.date.accessioned | 2023-07-02T00:00:26Z | - |
dc.date.available | 2023-07-02T00:00:26Z | - |
dc.date.created | 2023-04-24 | - |
dc.date.created | 2023-04-24 | - |
dc.date.created | 2023-04-24 | - |
dc.date.created | 2023-04-24 | - |
dc.date.issued | 2023-06 | - |
dc.identifier.citation | NUCLEIC ACIDS RESEARCH, v.51, no.11, pp.5377 - 5395 | - |
dc.identifier.issn | 0305-1048 | - |
dc.identifier.uri | http://hdl.handle.net/10203/310181 | - |
dc.description.abstract | Inter-chromosomal interactions play a crucial role in genome organization, yet the organizational principles remain elusive. Here, we introduce a novel computational method to systematically characterize inter-chromosomal interactions using in situ Hi-C results from various cell types. Our method successfully identifies two apparently hub-like inter-chromosomal contacts associated with nuclear speckles and nucleoli, respectively. Interestingly, we discover that nuclear speckle-associated inter-chromosomal interactions are highly cell-type invariant with a marked enrichment of cell-type common super-enhancers (CSEs). Validation using DNA Oligopaint fluorescence in situ hybridization (FISH) shows a strong but probabilistic interaction behavior between nuclear speckles and CSE-harboring genomic regions. Strikingly, we find that the likelihood of speckle-CSE associations can accurately predict two experimentally measured inter-chromosomal contacts from Hi-C and Oligopaint DNA FISH. Our probabilistic establishment model well describes the hub-like structure observed at the population level as a cumulative effect of summing individual stochastic chromatin-speckle interactions. Lastly, we observe that CSEs are highly co-occupied by MAZ binding and MAZ depletion leads to significant disorganization of speckle-associated inter-chromosomal contacts. Taken together, our results propose a simple organizational principle of inter-chromosomal interactions mediated by MAZ-occupied CSEs. | - |
dc.language | English | - |
dc.publisher | OXFORD UNIV PRESS | - |
dc.title | Probabilistic establishment of speckle-associated inter-chromosomal interactions | - |
dc.type | Article | - |
dc.identifier.wosid | 000962422600001 | - |
dc.identifier.scopusid | 2-s2.0-85163967163 | - |
dc.type.rims | ART | - |
dc.citation.volume | 51 | - |
dc.citation.issue | 11 | - |
dc.citation.beginningpage | 5377 | - |
dc.citation.endingpage | 5395 | - |
dc.citation.publicationname | NUCLEIC ACIDS RESEARCH | - |
dc.identifier.doi | 10.1093/nar/gkad211 | - |
dc.contributor.localauthor | Jung, Inkyung | - |
dc.contributor.nonIdAuthor | Cho, Sunghyun | - |
dc.contributor.nonIdAuthor | Hong, Sukbum | - |
dc.contributor.nonIdAuthor | Kumar, Rajeev | - |
dc.contributor.nonIdAuthor | Choi, Jeong-Mo | - |
dc.contributor.nonIdAuthor | Shin, Yongdae | - |
dc.description.isOpenAccess | N | - |
dc.type.journalArticle | Article | - |
dc.subject.keywordPlus | CELL IDENTITY | - |
dc.subject.keywordPlus | HUMAN GENOME | - |
dc.subject.keywordPlus | TRANSCRIPTION FACTORS | - |
dc.subject.keywordPlus | SUPER-ENHANCERS | - |
dc.subject.keywordPlus | HI-C | - |
dc.subject.keywordPlus | CHROMATIN | - |
dc.subject.keywordPlus | DOMAINS | - |
dc.subject.keywordPlus | ORGANIZATION | - |
dc.subject.keywordPlus | PRINCIPLES | - |
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