{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Marchena-Cruz E"],"funding":["NIEHS NIH HHS","Secretaría de Estado de Investigacion, Desarrollo e Innovacion","Federación Española de Enfermedades Raras","National Institutes of Health","Ministerio de Educación, Cultura y Deporte","European Commission","Gobierno de Espana Ministerio de Educación Cultura y Deporte","European Research Council","Gobierno de Espana Ministerio de Economia y Competitividad","Ministerio de Ciencia e Innovación","Ministerio de Economía y Competitividad","Agencia Estatal de Investigacion","NIGMS NIH HHS"],"pagination":["112148"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC10066596"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["42(3)"],"pubmed_abstract":["Unscheduled R loops can be a source of genome instability, a hallmark of cancer cells. Although targeted proteomic approaches and cellular analysis of specific mutants have uncovered factors potentially involved in R-loop homeostasis, we report a more open screening of factors whose depletion causes R loops based on the ability of activation-induced cytidine deaminase (AID) to target R loops. Immunofluorescence analysis of γH2AX caused by small interfering RNAs (siRNAs) covering 3,205 protein-coding genes identifies 59 potential candidates, from which 13 are analyzed further and show a significant increase of R loops. Such candidates are enriched in factors involved in chromatin, transcription, and RNA biogenesis and other processes. A more focused study shows that the DDX47 helicase is an"],"journal":["Cell reports"],"pubmed_title":["DDX47, MeCP2, and other functionally heterogeneous factors protect cells from harmful R loops."],"pmcid":["PMC10066596"],"funding_grant_id":["R25 GM102783","R15 GM139135","PID2019-104270GB-I00/BMC","ERC2014 AdG669898 TARLOOP","BFU2016-75058-P","R21 ES028792"],"pubmed_authors":["Marqueta-Gracia JJ","Amdeen SA","Garcia-Rubio ML","Aguilera A","Guillen-Mendoza C","Camino LP","Calderon-Montano JM","Luna R","Marchena-Cruz E","Bhandari J","Xue X","Silva S"],"additional_accession":[]},"is_claimable":false,"name":"DDX47, MeCP2, and other functionally heterogeneous factors protect cells from harmful R loops.","description":"Unscheduled R loops can be a source of genome instability, a hallmark of cancer cells. Although targeted proteomic approaches and cellular analysis of specific mutants have uncovered factors potentially involved in R-loop homeostasis, we report a more open screening of factors whose depletion causes R loops based on the ability of activation-induced cytidine deaminase (AID) to target R loops. Immunofluorescence analysis of γH2AX caused by small interfering RNAs (siRNAs) covering 3,205 protein-coding genes identifies 59 potential candidates, from which 13 are analyzed further and show a significant increase of R loops. Such candidates are enriched in factors involved in chromatin, transcription, and RNA biogenesis and other processes. A more focused study shows that the DDX47 helicase is an","dates":{"release":"2023-01-01T00:00:00Z","publication":"2023 Mar","modification":"2026-05-29T03:31:38.41Z","creation":"2024-12-03T17:18:02.383Z"},"accession":"S-EPMC10066596","cross_references":{"pubmed":["36827184"],"doi":["10.1016/j.celrep.2023.112148"]}}