{"id":"https://openalex.org/W2972314039","doi":"https://doi.org/10.1109/bhi.2019.8834565","title":"Alterations in Chromatin Folding Patterns in Cancer Variant-Enriched Loci","display_name":"Alterations in Chromatin Folding Patterns in Cancer Variant-Enriched Loci","publication_year":2019,"publication_date":"2019-05-01","ids":{"openalex":"https://openalex.org/W2972314039","doi":"https://doi.org/10.1109/bhi.2019.8834565","mag":"2972314039","pmid":"https://pubmed.ncbi.nlm.nih.gov/34085045"},"language":"en","primary_location":{"id":"doi:10.1109/bhi.2019.8834565","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bhi.2019.8834565","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE EMBS International Conference on Biomedical &amp; Health Informatics (BHI)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8172279","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5056778783","display_name":"Alan Perez-Rathke","orcid":"https://orcid.org/0000-0002-0792-2484"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Alan Perez-Rathke","raw_affiliation_strings":["Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","institution_ids":["https://openalex.org/I39422238"]},{"raw_affiliation_string":"Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036543142","display_name":"Samira Mali","orcid":"https://orcid.org/0000-0002-3701-0072"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Samira Mali","raw_affiliation_strings":["Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","institution_ids":["https://openalex.org/I39422238"]},{"raw_affiliation_string":"Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101907172","display_name":"Lin Du","orcid":"https://orcid.org/0000-0002-8572-4360"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lin Du","raw_affiliation_strings":["Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","institution_ids":["https://openalex.org/I39422238"]},{"raw_affiliation_string":"Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091558783","display_name":"Jie Liang","orcid":"https://orcid.org/0000-0002-2773-6427"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jie Liang","raw_affiliation_strings":["Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607, USA","institution_ids":["https://openalex.org/I39422238"]},{"raw_affiliation_string":"Bioinformatics Program, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5056778783"],"corresponding_institution_ids":["https://openalex.org/I39422238"],"apc_list":null,"apc_paid":null,"fwci":0.5966,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.66864142,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"2019","issue":null,"first_page":"1","last_page":"4"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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":0.9998999834060669,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9969000220298767,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.9936000108718872,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/chromatin","display_name":"Chromatin","score":0.8971256017684937},{"id":"https://openalex.org/keywords/folding","display_name":"Folding (DSP implementation)","score":0.6191610097885132},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5426698923110962},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5168202519416809},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.47673213481903076},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.39354708790779114},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36137425899505615}],"concepts":[{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.8971256017684937},{"id":"https://openalex.org/C2776545253","wikidata":"https://www.wikidata.org/wiki/Q5464292","display_name":"Folding (DSP implementation)","level":2,"score":0.6191610097885132},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5426698923110962},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5168202519416809},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.47673213481903076},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.39354708790779114},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36137425899505615},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/bhi.2019.8834565","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bhi.2019.8834565","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE EMBS International Conference on Biomedical &amp; Health Informatics (BHI)","raw_type":"proceedings-article"},{"id":"pmid:34085045","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34085045","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":"... IEEE-EMBS International Conference on Biomedical and Health Informatics. IEEE-EMBS International Conference on Biomedical and Health Informatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:8172279","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8172279","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE EMBS Int Conf Biomed Health Inform","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8172279","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8172279","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE EMBS Int Conf Biomed Health Inform","raw_type":"Text"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.6100000143051147}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W1596515083","https://openalex.org/W1831401007","https://openalex.org/W1896708637","https://openalex.org/W1973062929","https://openalex.org/W1993570130","https://openalex.org/W2070021921","https://openalex.org/W2073026107","https://openalex.org/W2074915491","https://openalex.org/W2080479776","https://openalex.org/W2090037139","https://openalex.org/W2099293621","https://openalex.org/W2110065044","https://openalex.org/W2146774335","https://openalex.org/W2147947827","https://openalex.org/W2160927412","https://openalex.org/W2324665822","https://openalex.org/W2344228791","https://openalex.org/W2395911357","https://openalex.org/W2481029670","https://openalex.org/W2507209892","https://openalex.org/W2747681174","https://openalex.org/W2752897074","https://openalex.org/W2769224583","https://openalex.org/W2793004654","https://openalex.org/W2796408191","https://openalex.org/W2883453789","https://openalex.org/W2898789672","https://openalex.org/W6742890023","https://openalex.org/W6753058790"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W4286930115","https://openalex.org/W3004891660","https://openalex.org/W2969540308","https://openalex.org/W2414971881","https://openalex.org/W4206381471","https://openalex.org/W1886874180","https://openalex.org/W42421305","https://openalex.org/W4225831698","https://openalex.org/W3198436517"],"abstract_inverted_index":{"In":[0],"this":[1],"study,":[2],"we":[3],"focus":[4],"on":[5,42],"the":[6],"following":[7],"question:":[8],"do":[9],"genomic":[10],"regions":[11],"enriched":[12],"in":[13,34,65],"cancer":[14,38,66,81],"variant":[15,82],"mutations":[16],"have":[17,84],"significantly":[18,70,85],"different":[19,71],"chromatin":[20,31,51,62,90],"folding":[21,32,63,91],"patterns?":[22],"We":[23,54],"utilize":[24],"publicly":[25],"available":[26],"Hi-C":[27],"data":[28],"to":[29,59],"characterize":[30],"patterns":[33,64],"healthy":[35],"(GM12878)":[36],"and":[37,47],"(K562)":[39],"cells":[40],"based":[41],"status":[43,83],"of":[44],"A/B":[45],"compartmentalization":[46],"random":[48],"vs":[49],"non-random":[50],"physical":[52],"interactions.":[53],"then":[55],"perform":[56],"statistical":[57],"testing":[58],"assess":[60],"if":[61],"variant-enriched":[67],"loci":[68,79],"are":[69],"from":[72],"non-enriched":[73],"loci.":[74],"Our":[75],"results":[76],"indicate":[77],"that":[78],"with":[80],"altered":[86],"(FDR":[87],"<":[88],"0.05)":[89],"patterns.":[92]},"counts_by_year":[{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
