{"doi":"10.1016/j.celrep.2023.112148","title":"DDX47, MeCP2, and other functionally heterogeneous factors protect cells from harmful R loops","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 R-loop resolvase, whereas the MeCP2 methyl-CpG-binding protein uncovers a link between DNA methylation and R loops. Thus, our results suggest that a plethora of gene dysfunctions can alter cell physiology via affecting R-loop homeostasis by different mechanisms.","journal":"Cell Reports","year":2023,"id":331278,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":29,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9559,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2023-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":795146,"name":"Lola P. Camino","orcid":"0000-0002-3694-8392","position":1,"is_corresponding":false},{"id":1056151,"name":"Jay Bhandari","orcid":"0000-0002-3054-0011","position":2,"is_corresponding":false},{"id":634844,"name":"Sónia Silva","orcid":"0000-0003-3700-3072","position":3,"is_corresponding":false},{"id":1056152,"name":"José Javier Marqueta-Gracia","orcid":"0000-0002-4425-7735","position":4,"is_corresponding":false},{"id":1056706,"name":"Shahad A. Amdeen","orcid":null,"position":5,"is_corresponding":false},{"id":1056153,"name":"Cristina Guillén-Mendoza","orcid":"0000-0003-4396-4865","position":6,"is_corresponding":false},{"id":795148,"name":"María García‐Rubio","orcid":"0000-0003-0981-0555","position":7,"is_corresponding":false},{"id":1056154,"name":"José Manuel Calderón‐Montaño","orcid":"0000-0001-6845-797X","position":8,"is_corresponding":false},{"id":380566,"name":"Xiaoyu Xue","orcid":"0000-0001-9654-6566","position":9,"is_corresponding":false},{"id":1056155,"name":"Rosa Luna","orcid":"0000-0002-6131-6610","position":10,"is_corresponding":false},{"id":550247,"name":"Andrés Aguilera","orcid":"0000-0003-4782-1714","position":11,"is_corresponding":false},{"id":1056705,"name":"Esther Marchena-Cruz","orcid":null,"position":0,"is_corresponding":true}],"reference_count":84,"raw_metadata":null,"created_at":"2026-07-19T01:09:19.317824Z","pmid":"36827184","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}