{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Plaza-Jennings AL"],"funding":["NIDA NIH HHS","NIA NIH HHS","NIMH NIH HHS","NINDS NIH HHS","National Institutes of Health","Icahn School of Medicine at Mount Sinai","NIGMS NIH HHS"],"pagination":["4647-4663.e8"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9831062"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["82(24)"],"pubmed_abstract":["To explore genome organization and function in the HIV-infected brain, we applied single-nuclei transcriptomics, cell-type-specific chromosomal conformation mapping, and viral integration site sequencing (IS-seq) to frontal cortex from individuals with encephalitis (HIVE) and without (HIV+). Derepressive changes in 3D genomic compartment structures in HIVE microglia were linked to the transcriptional activation of interferon (IFN) signaling and cell migratory pathways, while transcriptional downregulation and repressive compartmentalization of neuronal health and signaling genes occurred in both HIVE and HIV+ microglia. IS-seq recovered 1,221 brain integration sites showing distinct genomic patterns compared with peripheral lymphocytes, with enrichment for sequences newly mobilized into a "],"journal":["Molecular cell"],"pubmed_title":["HIV integration in the human brain is linked to microglial activation and 3D genome remodeling."],"pmcid":["PMC9831062"],"funding_grant_id":["R01 DA054526","R01NS108801","DP2 MH122403","U01 DA053600","R21 DA051921","DP2MH122403","DP1 DA056018","R01DA054526","R61 DA048207","R01 NS108801","R01 AG066871","R61DA048207","DP1DA056018","R01 DA041765","R21DA051921","R01DA041765","U24 MH100931","5U24MH100931-10","T32 GM146636"],"pubmed_authors":["Chen BK","Won H","Chandrasekaran S","Plaza-Jennings AL","Kassim B","Valada A","Hu B","Akbarian S","Javidfar B","O'Shea C","Iskhakova M","Murray J","Ben Hutta G","Lambert TY","Morgello S"],"additional_accession":[]},"is_claimable":false,"name":"HIV integration in the human brain is linked to microglial activation and 3D genome remodeling.","description":"To explore genome organization and function in the HIV-infected brain, we applied single-nuclei transcriptomics, cell-type-specific chromosomal conformation mapping, and viral integration site sequencing (IS-seq) to frontal cortex from individuals with encephalitis (HIVE) and without (HIV+). Derepressive changes in 3D genomic compartment structures in HIVE microglia were linked to the transcriptional activation of interferon (IFN) signaling and cell migratory pathways, while transcriptional downregulation and repressive compartmentalization of neuronal health and signaling genes occurred in both HIVE and HIV+ microglia. IS-seq recovered 1,221 brain integration sites showing distinct genomic patterns compared with peripheral lymphocytes, with enrichment for sequences newly mobilized into a ","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Dec","modification":"2025-04-26T17:09:03.737Z","creation":"2024-12-04T01:26:04.671Z"},"accession":"S-EPMC9831062","cross_references":{"pubmed":["36525955"],"doi":["10.1016/j.molcel.2022.11.016"]}}