{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Gambi G"],"funding":["Stanford Genome Technology Center","Alex's Lemonade Stand Foundation for Childhood Cancer","St. Baldrick's Foundation","Italian Association for Cancer Research","National Cancer Institute","NCI NIH HHS","National Institutes of Health","National Cancer Institute Division of Cancer Prevention","Hopkins Population Center, Johns Hopkins University","American-Italian Cancer Foundation"],"pagination":["42-60.e7"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC11934262"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["85(1)"],"pubmed_abstract":["Cancer progression involves genetic and epigenetic changes that disrupt chromatin 3D organization, affecting enhancer-promoter interactions and promoting growth. Here, we provide an integrative approach, combining chromatin conformation, accessibility, and transcription analysis, validated by in silico and CRISPR-interference screens, to identify relevant 3D topologies in pediatric T cell leukemia (T-ALL and ETP-ALL). We characterize 3D hubs as regulatory centers for oncogenes and disease markers, linking them to biological processes like cell division, inflammation, and stress response. Single-cell mapping reveals heterogeneous gene activation in discrete epigenetic clones, aiding in patient stratification for relapse risk after chemotherapy. Finally, we identify MYB as a 3D hub regulator"],"journal":["Molecular cell"],"pubmed_title":["3D chromatin hubs as regulatory units of identity and survival in human acute leukemia."],"pmcid":["PMC11934262"],"funding_grant_id":["R01 CA266212","R01CA252239","P01CA229086","P30 CA008748","R01 CA140729","RO1CA298153","26533","R01 CA252239","R01 CA271455","R01CA271455","P01 CA229086","R01 CA298153","R01 CA228135","P30 CA016087","R01CA140729","R01CA266212","R01CA228135","R01CA260028","R01 CA260028"],"pubmed_authors":["Apostolou E","Tan J","Boccalatte F","Aifantis I","Avrampou K","Lin Z","Tsirigos A","Gambi G","Nadorp B","Rodriguez Hernaez J","Kentsis A","Polyzos A","Inghirami G"],"additional_accession":[]},"is_claimable":false,"name":"3D chromatin hubs as regulatory units of identity and survival in human acute leukemia.","description":"Cancer progression involves genetic and epigenetic changes that disrupt chromatin 3D organization, affecting enhancer-promoter interactions and promoting growth. Here, we provide an integrative approach, combining chromatin conformation, accessibility, and transcription analysis, validated by in silico and CRISPR-interference screens, to identify relevant 3D topologies in pediatric T cell leukemia (T-ALL and ETP-ALL). We characterize 3D hubs as regulatory centers for oncogenes and disease markers, linking them to biological processes like cell division, inflammation, and stress response. Single-cell mapping reveals heterogeneous gene activation in discrete epigenetic clones, aiding in patient stratification for relapse risk after chemotherapy. Finally, we identify MYB as a 3D hub regulator","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Jan","modification":"2026-06-06T19:56:38.042Z","creation":"2026-06-04T03:12:28.011Z"},"accession":"S-EPMC11934262","cross_references":{"pubmed":["39719705"],"doi":["10.1016/j.molcel.2024.11.040"]}}