{"id":"https://openalex.org/W3129923115","doi":"https://doi.org/10.1038/s41467-021-21368-0","title":"Loop competition and extrusion model predicts CTCF interaction specificity","display_name":"Loop competition and extrusion model predicts CTCF interaction specificity","publication_year":2021,"publication_date":"2021-02-16","ids":{"openalex":"https://openalex.org/W3129923115","doi":"https://doi.org/10.1038/s41467-021-21368-0","mag":"3129923115","pmid":"https://pubmed.ncbi.nlm.nih.gov/33594051","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/7886907"},"language":"en","primary_location":{"id":"doi:10.1038/s41467-021-21368-0","doi":"https://doi.org/10.1038/s41467-021-21368-0","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s41467-021-21368-0","pdf_url":"https://www.nature.com/articles/s41467-021-21368-0.pdf","source":{"id":"https://openalex.org/S64187185","display_name":"Nature Communications","issn_l":"2041-1723","issn":["2041-1723"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Communications","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.nature.com/articles/s41467-021-21368-0.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100442275","display_name":"Xi Wang","orcid":"https://orcid.org/0000-0002-7936-9366","observed_orcids":["https://orcid.org/0000-0002-7936-9366"]},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wang Xi","raw_affiliation_strings":["Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA","McKusick-Nathans Department of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948"]},{"raw_affiliation_string":"McKusick-Nathans Department of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I2799853436"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065787609","display_name":"M Beer","orcid":"https://orcid.org/0000-0001-9955-3809","observed_orcids":["https://orcid.org/0000-0001-9955-3809"]},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Michael A. Beer","raw_affiliation_strings":["Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA. mbeer@jhu.edu","McKusick-Nathans Department of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA. mbeer@jhu.edu","Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA","McKusick-Nathans Department of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA"],"raw_orcid":"https://orcid.org/0000-0001-9955-3809","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA. mbeer@jhu.edu","institution_ids":["https://openalex.org/I145311948"]},{"raw_affiliation_string":"McKusick-Nathans Department of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA. mbeer@jhu.edu","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I2799853436"]},{"raw_affiliation_string":"Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948"]},{"raw_affiliation_string":"McKusick-Nathans Department of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I2799853436"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5065787609"],"corresponding_institution_ids":["https://openalex.org/I145311948","https://openalex.org/I2799853436"],"apc_list":{"value":5560,"currency":"USD","value_usd":5560},"apc_paid":{"value":5560,"currency":"USD","value_usd":5560},"fwci":2.4526,"has_fulltext":true,"cited_by_count":43,"citation_normalized_percentile":{"value":0.91624091,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"1046","last_page":"1046"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9955999851226807,"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":0.9955999851226807,"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/T12820","display_name":"Chromatin Remodeling and Cancer","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"}},{"id":"https://openalex.org/T13187","display_name":"Diffusion and Search Dynamics","score":0.00019999999494757503,"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/ctcf","display_name":"CTCF","score":0.9850000143051147},{"id":"https://openalex.org/keywords/chromatin-looping","display_name":"chromatin looping","score":0.8220000267028809},{"id":"https://openalex.org/keywords/enhancer-promoter-interactions","display_name":"enhancer-promoter interactions","score":0.8479999899864197},{"id":"https://openalex.org/keywords/3d-genome-organization","display_name":"3D genome organization","score":0.7179999947547913},{"id":"https://openalex.org/keywords/chia-pet","display_name":"ChIA-PET","score":0.7929999828338623}],"concepts":[{"id":"https://openalex.org/C2778760011","wikidata":"https://www.wikidata.org/wiki/Q21163346","display_name":"CTCF","level":5,"score":0.9785252809524536},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.7238376140594482},{"id":"https://openalex.org/C111936080","wikidata":"https://www.wikidata.org/wiki/Q913367","display_name":"Enhancer","level":4,"score":0.6991591453552246},{"id":"https://openalex.org/C115821613","wikidata":"https://www.wikidata.org/wiki/Q21103063","display_name":"Cohesin","level":4,"score":0.6475155353546143},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4990534782409668},{"id":"https://openalex.org/C93946551","wikidata":"https://www.wikidata.org/wiki/Q5113914","display_name":"Chromosome conformation capture","level":5,"score":0.48755186796188354},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4760032594203949},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.460846871137619},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.4184929132461548},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3631970286369324},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.19812461733818054}],"mesh":[{"descriptor_ui":"D000076246","descriptor_name":"CCCTC-Binding Factor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000097722","descriptor_name":"Cohesins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004742","descriptor_name":"Enhancer Elements, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006367","descriptor_name":"HeLa Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009687","descriptor_name":"Nuclear Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011518","descriptor_name":"Proto-Oncogene Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1038/s41467-021-21368-0","doi":"https://doi.org/10.1038/s41467-021-21368-0","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s41467-021-21368-0","pdf_url":"https://www.nature.com/articles/s41467-021-21368-0.pdf","source":{"id":"https://openalex.org/S64187185","display_name":"Nature Communications","issn_l":"2041-1723","issn":["2041-1723"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Communications","raw_type":"journal-article"},{"id":"doi:10.1101/2020.07.02.185389","doi":"https://doi.org/10.1101/2020.07.02.185389","is_oa":true,"landing_page_url":"https://doi.org/10.1101/2020.07.02.185389","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2021/01/11/2020.07.02.185389.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmh:oai:pubmedcentral.nih.gov:7886907","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7886907","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":"Nat Commun","raw_type":"Text"},{"id":"pmid:33594051","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33594051","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":"Nature communications","raw_type":"Journal Article"},{"id":"pmh:oai:RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-21368-0","doi":null,"is_oa":false,"landing_page_url":"https://www.nature.com/articles/s41467-021-21368-0","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,"listed_in":[],"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:4a7e3fcaccb741f6871932d44d8598bb","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/4a7e3fcaccb741f6871932d44d8598bb","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":"Nature Communications, Vol 12, Iss 1, Pp 1-15 (2021)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1038/s41467-021-21368-0","doi":"https://doi.org/10.1038/s41467-021-21368-0","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s41467-021-21368-0","pdf_url":"https://www.nature.com/articles/s41467-021-21368-0.pdf","source":{"id":"https://openalex.org/S64187185","display_name":"Nature Communications","issn_l":"2041-1723","issn":["2041-1723"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-a","doyens","jufo-3","ki-jl-3","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Communications","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G5118358952","display_name":"\"Systematic Identification of Core Regulatory Circuitry from ENCODE Data\"","funder_award_id":"U01HG009380","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G5848527740","display_name":null,"funder_award_id":"HG009380","funder_id":"https://openalex.org/F4320306085","funder_display_name":"U.S. Department of Health and Human Services"},{"id":"https://openalex.org/G7088780337","display_name":"SVM-based Analysis of the Fine Scale Structure of Regulatory Elements","funder_award_id":"R01HG007348","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G7308339841","display_name":null,"funder_award_id":"HG007348","funder_id":"https://openalex.org/F4320306085","funder_display_name":"U.S. Department of Health and Human Services"}],"funders":[{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3129923115.pdf","grobid_xml":"https://content.openalex.org/works/W3129923115.grobid-xml"},"referenced_works_count":77,"referenced_works":["https://openalex.org/W1660678623","https://openalex.org/W1831401007","https://openalex.org/W1859117663","https://openalex.org/W1873772354","https://openalex.org/W1900337607","https://openalex.org/W1941076503","https://openalex.org/W1973062929","https://openalex.org/W1975542854","https://openalex.org/W1982056010","https://openalex.org/W1985621639","https://openalex.org/W1988581590","https://openalex.org/W2031057223","https://openalex.org/W2070021921","https://openalex.org/W2074915491","https://openalex.org/W2078526277","https://openalex.org/W2090037139","https://openalex.org/W2095680943","https://openalex.org/W2098497185","https://openalex.org/W2105778988","https://openalex.org/W2112621436","https://openalex.org/W2122056961","https://openalex.org/W2145684083","https://openalex.org/W2171808845","https://openalex.org/W2195190137","https://openalex.org/W2239511084","https://openalex.org/W2325099115","https://openalex.org/W2338485081","https://openalex.org/W2401568148","https://openalex.org/W2413629639","https://openalex.org/W2519241029","https://openalex.org/W2523898334","https://openalex.org/W2524507363","https://openalex.org/W2556041461","https://openalex.org/W2561535772","https://openalex.org/W2567008309","https://openalex.org/W2601644401","https://openalex.org/W2604130415","https://openalex.org/W2606796272","https://openalex.org/W2610160407","https://openalex.org/W2614144400","https://openalex.org/W2614347829","https://openalex.org/W2757387674","https://openalex.org/W2761461280","https://openalex.org/W2775505403","https://openalex.org/W2781657900","https://openalex.org/W2797715364","https://openalex.org/W2800968671","https://openalex.org/W2806018285","https://openalex.org/W2810076504","https://openalex.org/W2895251860","https://openalex.org/W2898577086","https://openalex.org/W2918443914","https://openalex.org/W2945239551","https://openalex.org/W2946618087","https://openalex.org/W2949423586","https://openalex.org/W2949672039","https://openalex.org/W2950728164","https://openalex.org/W2952336494","https://openalex.org/W2963734385","https://openalex.org/W2989713781","https://openalex.org/W2991011261","https://openalex.org/W2991248607","https://openalex.org/W2991283206","https://openalex.org/W2999147745","https://openalex.org/W3005957649","https://openalex.org/W3009665504","https://openalex.org/W3013167866","https://openalex.org/W3020095916","https://openalex.org/W3027928376","https://openalex.org/W3033286030","https://openalex.org/W3038841557","https://openalex.org/W3045910546","https://openalex.org/W3120280701","https://openalex.org/W3147833596","https://openalex.org/W3195330522","https://openalex.org/W4394666350","https://openalex.org/W6893722636"],"related_works":["https://openalex.org/W4387895578","https://openalex.org/W2977417679","https://openalex.org/W2311269619","https://openalex.org/W7140237900","https://openalex.org/W3186634360","https://openalex.org/W4388677882","https://openalex.org/W7168887480","https://openalex.org/W3038795558","https://openalex.org/W2585179660","https://openalex.org/W4384070931"],"abstract_inverted_index":{"Three-dimensional":[0],"chromatin":[1,122],"looping":[2,96],"interactions":[3,11],"play":[4,21],"an":[5,73],"important":[6],"role":[7,24],"in":[8,25],"constraining":[9],"enhancer-promoter":[10,144],"and":[12,41,76,91,133,135],"mediating":[13],"transcriptional":[14],"gene":[15],"regulation.":[16],"CTCF":[17,36,53,81,95,128],"is":[18,45,62,86,106,118,136],"thought":[19],"to":[20,47],"a":[22,107],"critical":[23,108],"the":[26,32],"formation":[27,84],"of":[28,34,66,80,110],"these":[29],"loops,":[30],"but":[31,58],"specificity":[33],"which":[35,42,85],"binding":[37,54,129],"events":[38],"form":[39],"loops":[40,105],"do":[43],"not":[44],"difficult":[46],"predict.":[48],"Loops":[49],"often":[50],"have":[51],"convergent":[52],"site":[55,130],"motif":[56],"orientation,":[57],"this":[59,116],"constraint":[60],"alone":[61],"only":[63],"weakly":[64],"predictive":[65],"genome-wide":[67],"interaction":[68,97,123],"data.":[69],"Here":[70],"we":[71],"present":[72],"easily":[74],"interpretable":[75],"simple":[77],"mathematical":[78],"model":[79,117],"mediated":[82],"loop":[83,111],"consistent":[87,119,138],"with":[88,99,120,139],"Cohesin":[89],"extrusion":[90],"can":[92],"predict":[93],"ChIA-PET":[94],"measurements":[98],"high":[100],"accuracy.":[101],"Competition":[102],"between":[103],"overlapping":[104],"determinant":[109],"specificity.":[112],"We":[113],"show":[114],"that":[115],"observed":[121,140],"frequency":[124],"changes":[125],"induced":[126],"by":[127],"deletion,":[131],"inversion,":[132],"mutation,":[134],"also":[137],"constraints":[141],"on":[142],"validated":[143],"interactions.":[145]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":11},{"year":2023,"cited_by_count":10},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":5}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2021-03-01T00:00:00"}