{"id":"https://openalex.org/W7204162463","doi":"https://doi.org/10.1093/bioinformatics/btag631","title":"hicream: A flexible framework to identify significantly different regions in Hi-C data","display_name":"hicream: A flexible framework to identify significantly different regions in Hi-C data","publication_year":2026,"publication_date":"2026-08-24","ids":{"openalex":"https://openalex.org/W7204162463","doi":"https://doi.org/10.1093/bioinformatics/btag631","pmid":"https://pubmed.ncbi.nlm.nih.gov/42640482","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/13597124"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btag631","doi":"https://doi.org/10.1093/bioinformatics/btag631","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag631","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","ccf-a","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","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://doi.org/10.1093/bioinformatics/btag631","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5098953778","display_name":"\u00c9lise Jorge","orcid":"https://orcid.org/0009-0004-1833-3484","observed_orcids":["https://orcid.org/0009-0004-1833-3484"]},"institutions":[{"id":"https://openalex.org/I176063091","display_name":"\u00c9cole Nationale V\u00e9t\u00e9rinaire de Toulouse","ror":"https://ror.org/03m3gzv89","country_code":"FR","type":"education","lineage":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210117091"]},{"id":"https://openalex.org/I205747304","display_name":"Institut National Polytechnique de Toulouse","ror":"https://ror.org/033p9g875","country_code":"FR","type":"education","lineage":["https://openalex.org/I205747304"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210154939","display_name":"G\u00e9n\u00e9tique Physiologie et Syst\u00e8mes d'Elevage","ror":"https://ror.org/04gg6ne93","country_code":"FR","type":"facility","lineage":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210088668","https://openalex.org/I4210117091","https://openalex.org/I4210154939"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Elise Jorge","raw_affiliation_strings":["GenPhySE, Univ Toulouse, Toulouse INP, ENVT, INRAE , Castanet-Tolosan 31326,"],"raw_orcid":"https://orcid.org/0009-0004-1833-3484","affiliations":[{"raw_affiliation_string":"GenPhySE, Univ Toulouse, Toulouse INP, ENVT, INRAE , Castanet-Tolosan 31326,","institution_ids":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210088668","https://openalex.org/I4210154939"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035679840","display_name":"Toby Dylan Hocking","orcid":"https://orcid.org/0000-0002-3146-0865","observed_orcids":["https://orcid.org/0000-0002-3146-0865"]},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Toby Dylan Hocking","raw_affiliation_strings":["LASSO lab, D\u00e9partement d\u2019informatique, Universit\u00e9 de Sherbrooke , Sherbrooke QC J1K-2R1,"],"raw_orcid":"https://orcid.org/0000-0002-3146-0865","affiliations":[{"raw_affiliation_string":"LASSO lab, D\u00e9partement d\u2019informatique, Universit\u00e9 de Sherbrooke , Sherbrooke QC J1K-2R1,","institution_ids":["https://openalex.org/I135117807"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071356919","display_name":"Pierre Neuvial","orcid":"https://orcid.org/0000-0003-3584-9998","observed_orcids":["https://orcid.org/0000-0003-3584-9998"]},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I134560555","display_name":"Universit\u00e9 Toulouse III - Paul Sabatier","ror":"https://ror.org/02v6kpv12","country_code":"FR","type":"education","lineage":["https://openalex.org/I134560555","https://openalex.org/I4405258862"]},{"id":"https://openalex.org/I4405258862","display_name":"Universit\u00e9 de Toulouse","ror":"https://ror.org/01ahyrz84","country_code":"FR","type":"education","lineage":["https://openalex.org/I4405258862"]},{"id":"https://openalex.org/I84500057","display_name":"Institut de Math\u00e9matiques de Toulouse","ror":"https://ror.org/014vp6c30","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I196454796","https://openalex.org/I4210092408","https://openalex.org/I4210126056","https://openalex.org/I4210141950","https://openalex.org/I4210152422","https://openalex.org/I4405258862","https://openalex.org/I84500057"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Pierre Neuvial","raw_affiliation_strings":["Institut de Math\u00e9matiques de Toulouse, UMR 5219, Universit\u00e9 de Toulouse, CNRS UPS , Toulouse 31062,"],"raw_orcid":"https://orcid.org/0000-0003-3584-9998","affiliations":[{"raw_affiliation_string":"Institut de Math\u00e9matiques de Toulouse, UMR 5219, Universit\u00e9 de Toulouse, CNRS UPS , Toulouse 31062,","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4405258862","https://openalex.org/I84500057"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009531781","display_name":"Nathalie Vialaneix","orcid":"https://orcid.org/0000-0003-1156-0639","observed_orcids":["https://orcid.org/0000-0003-1156-0639"]},"institutions":[{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4405263698","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es Toulouse","ror":"https://ror.org/0529hw956","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4405263698"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Nathalie Vialaneix","raw_affiliation_strings":["Universit\u00e9 F\u00e9d\u00e9rale de Toulouse, INRAE, MIAT , Castanet-Tolosan 31326,"],"raw_orcid":"https://orcid.org/0000-0003-1156-0639","affiliations":[{"raw_affiliation_string":"Universit\u00e9 F\u00e9d\u00e9rale de Toulouse, INRAE, MIAT , Castanet-Tolosan 31326,","institution_ids":["https://openalex.org/I4210088668","https://openalex.org/I4405263698"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035037595","display_name":"Sylvain Foissac","orcid":"https://orcid.org/0000-0002-2631-5356","observed_orcids":["https://orcid.org/0000-0002-2631-5356"]},"institutions":[{"id":"https://openalex.org/I176063091","display_name":"\u00c9cole Nationale V\u00e9t\u00e9rinaire de Toulouse","ror":"https://ror.org/03m3gzv89","country_code":"FR","type":"education","lineage":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210117091"]},{"id":"https://openalex.org/I205747304","display_name":"Institut National Polytechnique de Toulouse","ror":"https://ror.org/033p9g875","country_code":"FR","type":"education","lineage":["https://openalex.org/I205747304"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210154939","display_name":"G\u00e9n\u00e9tique Physiologie et Syst\u00e8mes d'Elevage","ror":"https://ror.org/04gg6ne93","country_code":"FR","type":"facility","lineage":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210088668","https://openalex.org/I4210117091","https://openalex.org/I4210154939"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Sylvain Foissac","raw_affiliation_strings":["GenPhySE, Univ Toulouse, Toulouse INP, ENVT, INRAE , Castanet-Tolosan 31326,"],"raw_orcid":"https://orcid.org/0000-0002-2631-5356","affiliations":[{"raw_affiliation_string":"GenPhySE, Univ Toulouse, Toulouse INP, ENVT, INRAE , Castanet-Tolosan 31326,","institution_ids":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210088668","https://openalex.org/I4210154939"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5035037595","https://openalex.org/A5098953778"],"corresponding_institution_ids":["https://openalex.org/I176063091","https://openalex.org/I205747304","https://openalex.org/I4210088668","https://openalex.org/I4210154939"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":{"value":3989,"currency":"USD","value_usd":3989},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.48924804,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":"9","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":0.9940999746322632,"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":0.9940999746322632,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0006000000284984708,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.0005000000237487257,"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/3d-genome-organization","display_name":"3D genome organization","score":0.8610000014305115},{"id":"https://openalex.org/keywords/chromatin-interactions","display_name":"chromatin interactions","score":0.6439999938011169},{"id":"https://openalex.org/keywords/data-driven-clustering","display_name":"data-driven clustering","score":0.953000009059906},{"id":"https://openalex.org/keywords/interactive-visualization","display_name":"interactive visualization","score":0.6100000143051147}],"concepts":[{"id":"https://openalex.org/C93226319","wikidata":"https://www.wikidata.org/wiki/Q193137","display_name":"Differential (mechanical device)","level":2,"score":0.6929000020027161},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6891999840736389},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6830999851226807},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5838000178337097},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5709999799728394},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5418000221252441},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.4799000024795532},{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.4429999887943268},{"id":"https://openalex.org/C23130292","wikidata":"https://www.wikidata.org/wiki/Q5275358","display_name":"Differential privacy","level":2,"score":0.36410000920295715},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.35580000281333923},{"id":"https://openalex.org/C51820054","wikidata":"https://www.wikidata.org/wiki/Q5508814","display_name":"Functional data analysis","level":2,"score":0.30169999599456787},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.29899999499320984},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.29420000314712524},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.2824999988079071},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.2768000066280365},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.2694000005722046},{"id":"https://openalex.org/C2779843651","wikidata":"https://www.wikidata.org/wiki/Q7390335","display_name":"SIGNAL (programming language)","level":2,"score":0.2556999921798706},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.25450000166893005}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btag631","doi":"https://doi.org/10.1093/bioinformatics/btag631","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag631","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","ccf-a","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13597124","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13597124/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13597124/pdf/btag631.pdf","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":"Bioinformatics","raw_type":"Text"},{"id":"pmid:42640482","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42640482","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":"Bioinformatics (Oxford, England)","raw_type":"Journal Article"},{"id":"pmh:oai:HAL:hal-05774919v1","doi":null,"is_oa":true,"landing_page_url":"https://hal.inrae.fr/hal-05774919","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2026, 42 (9), &#x27E8;10.1093/bioinformatics/btag631&#x27E9;","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btag631","doi":"https://doi.org/10.1093/bioinformatics/btag631","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag631","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","ccf-a","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320328356","display_name":"R\u00e9gion Occitanie Pyr\u00e9n\u00e9es-M\u00e9diterran\u00e9e","ror":"https://ror.org/05mzwwx48"},{"id":"https://openalex.org/F4320331560","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7204162463.pdf","grobid_xml":"https://content.openalex.org/works/W7204162463.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1596515083","https://openalex.org/W1859117663","https://openalex.org/W1862913282","https://openalex.org/W1973024816","https://openalex.org/W2090037139","https://openalex.org/W2110065044","https://openalex.org/W2259938310","https://openalex.org/W2765567136","https://openalex.org/W2800968671","https://openalex.org/W2888589060","https://openalex.org/W2947440980","https://openalex.org/W2949153281","https://openalex.org/W2990380375","https://openalex.org/W3011951807","https://openalex.org/W3030892594","https://openalex.org/W3091300912","https://openalex.org/W3194392874","https://openalex.org/W4214832135","https://openalex.org/W4306893471","https://openalex.org/W4309076319","https://openalex.org/W4390840197","https://openalex.org/W4408145097","https://openalex.org/W4408628303","https://openalex.org/W4414532416"],"related_works":["https://openalex.org/W7164772721","https://openalex.org/W2775309317","https://openalex.org/W3127328250","https://openalex.org/W4309076319","https://openalex.org/W4416564443","https://openalex.org/W4399196535","https://openalex.org/W1862913282","https://openalex.org/W3169979800","https://openalex.org/W6996678612","https://openalex.org/W2946065743"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,167],"three-dimensional":[2],"(3D)":[3],"organization":[4],"of":[5,37,72,104,122,143,154],"the":[6,144,155],"genome":[7,106],"plays":[8],"a":[9,68,112,162],"central":[10],"role":[11],"in":[12,59,102],"many":[13],"biological":[14,45],"processes,":[15],"and":[16,30,55,94,136],"its":[17],"disruption":[18],"can":[19,31,171],"critically":[20],"impair":[21],"cellular":[22],"function.":[23],"Detecting":[24],"such":[25],"changes":[26,58],"is":[27,183],"therefore":[28],"crucial":[29],"be":[32,172],"achieved":[33],"through":[34,161],"differential":[35,47,116,129,134,156,169],"analysis":[36,49,118,135],"Hi-C":[38,42,48,117,145],"data.":[39],"By":[40,131],"comparing":[41],"data":[43],"across":[44],"conditions,":[46],"aims":[50],"to":[51,83,100,126,139],"identify":[52],"statistically":[53],"significant":[54],"biologically":[56],"relevant":[57],"chromatin":[60],"organization.":[61,107],"However,":[62],"most":[63],"existing":[64],"methods":[65],"either":[66],"target":[67],"single":[69],"predefined":[70],"type":[71],"structure":[73],"(e.g.":[74],"TADs,":[75],"loops,":[76],"or":[77,86,90],"compartments),":[78],"thereby":[79],"limiting":[80],"their":[81],"ability":[82],"uncover":[84,127],"novel":[85,113],"complex":[87],"structural":[88],"variations,":[89],"produce":[91],"highly":[92],"local":[93],"disconnected":[95],"results":[96],"that":[97,119],"are":[98],"difficult":[99],"interpret":[101],"terms":[103],"higher-order":[105],"RESULTS:":[108],"We":[109],"introduce":[110],"hicream,":[111],"framework":[114],"for":[115,158],"identifies":[120],"regions":[121,142,170],"arbitrary":[123],"shape,":[124],"allowing":[125],"new":[128],"structures.":[130],"combining":[132],"pixel-level":[133],"data-driven":[137],"clustering":[138],"define":[140],"candidate":[141],"interaction":[146],"matrix,":[147],"our":[148],"approach":[149],"provides":[150],"an":[151,175],"interpretable":[152],"measure":[153],"signal":[157],"each":[159],"region":[160],"post":[163],"hoc":[164],"inference":[165],"strategy.":[166],"resulting":[168],"explored":[173],"using":[174],"interactive":[176],"visualization":[177],"interface.":[178],"AVAILABILITY":[179],"AND":[180],"IMPLEMENTATION:":[181],"hicream":[182],"available":[184],"at":[185],"https://cran.r-project.org/package=hicream.":[186]},"counts_by_year":[],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2026-08-26T00:00:00"}
