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TranscriptomicsR-loops are marks for histone H3 Ser10 phosphorylation and chromatin compaction
R-loops are transcription by-products that may constitute a threat to genome integrity. In addition to specific enzymes to remove them, eukaryotes rely on a number of mRNP biogenesis factors such as the THO complex, to prevent co-transcriptional R-loop formation. We show in Saccharomyces cerevisiae ...
ORGANISM(S): Saccharomyces cerevisiae 
2013-11-13 | E-GEOD-46627 | biostudies-arrayexpress
GenomicsR-loops induce repressive chromatin marks over mammalian gene terminators
The formation of R-loops is a natural consequence of the transcription process, caused by invasion of the DNA duplex by nascent transcripts. These structures have been considered rare transcriptional by-products with potential harmful effects on genome integrity, due to the fragility of the displace...
ORGANISM(S): Homo sapiens 
2014-09-29 | E-GEOD-59878 | biostudies-arrayexpress
ProteomicsNAT10-dependent N4-acetylcytidine (ac4C) reprograms R-loops and promotes cancer stem cell growth
R-loop remodeling dynamically regulates chromatin states and gene expression; however, its exploitation by cancer to sustain self-renewal and malignancy remains poorly understood. Here, we found that glioblastoma (GBM) stem cells (GSCs) display highly active R-loops compared to differentiated tumor ...
ORGANISM(S): Homo sapiens (Human) 
2026-04-10 | PXD077002 | Pride
Ac4c Cancer stem cell Nat10 Glioblastoma R-loop remodeling Glioblastoma stem cell 
ProteomicsYY1 interacts with promoter R-loops to regulate transcription
R-loops are three-stranded nucleic acid structures consisting of a DNA-RNA hybrid and a displaced single-stranded DNA (ssDNA). R-loops are facilitators of gene expression and genome stability that play both regulatory and potentially deleterious roles in cells. To elucidate the protein-based mechani...
ORGANISM(S): Homo sapiens (Human) 
2026-03-09 | PXD071221 | Pride
Lc-ms/ms Proximity proteomics Transcription regulation Yy1 R-loop 
GenomicsR-loops Function as a Balance during Somatic Cell Reprogramming
R-loops Function as a Balance during Somatic Cell Reprogramming
PRJNA517073 | ENA
ProteomicsDNA Replication Stress Due to Loss of R-Loops in Myelodysplastic Syndromes with SF3B1 Mutation
Myelodysplastic syndromes (MDS) with mutated SF3B1 gene have many features including a favorable outcome that are distinct from MDS with mutations in other splicing factor genes SRSF2 or U2AF1. Molecular bases of these divergences are poorly understood. Here we show that SF3B1-mutated MDS are charac...
ORGANISM(S): Homo sapiens (Human) 
2024-05-29 | PXD038656 | Pride
R-loops Sf3b1 Myelodysplastic syndromes Replication 
GenomicsLipid overload-induced R Loops formed by m6A-modified circTACC3
Lipid overload-induced R Loops formed by m6A-modified circTACC3
PRJNA1136959 | ENA
ProteomicsIncrease in harmful R-loops associates with different alterations in mRNP composition
Understanding how the assembly of nascent mRNA into a ribonucleoprotein (mRNP) influences R-loop homeostasis is crucial for gaining insights into the cellular mechanisms that prevent genome instability. Here, we identify three RNA-binding proteins, Rie1, Rim4 and She2, whose stoichiometry is importa...
ORGANISM(S): Saccharomyces cerevisiae Saccharomyces cerevisiae (Baker's yeast) 
2025-06-13 | PXD057248 | Pride
R-loops Tho complex Rna-binding proteins Messenger ribonucleoparticle 
GenomicsADNP suppresses R-loops at its binding sites
ADNP suppresses R-loops at its binding sites
PRJNA719393 | ENA
GenomicsThe extruded non-template strand determines the architecture of R-loops
The extruded non-template strand determines the architecture of R-loops
PRJNA533230 | ENA
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