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ProteomicsCharacterization of R-loop-interacting proteins in embryonic stem cells reveals roles in ribosomal RNA processing and gene expression
Chromatin-associated RNAs have diverse roles in the nucleus. However, their mechanisms of action are poorly understood, in part due to the inability to identify proteins that specifically associate with chromatin-bound RNAs. Here, we address this problem for a subset of chromatin-associated RNAs tha...
ORGANISM(S): Mus musculus (Mouse) 
2021-09-17 | PXD022697 | Pride
R-loop-interacting proteins Immunoprecipitation/mass spectrometry approach Rna-protein crosslinking 
GenomicsR-loop in soybean
R-loop in soybean
PRJNA893374 | ENA
GenomicsHigh-Throughput Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation
High-Throughput Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation
PRJNA541182 | ENA
ProteomicsR-loop proximity proteomics identifies a role of DDX41 in transcription-associated genomic instabilityR-loop proximity proteomics identifies a role of DDX41 in transcription-associated genomic instability
Transcription can pose a threat to genomic stability through the formation of R-loops that obstruct the progression of replication forks. R-loops are three-stranded nucleic acid structures formed by an RNA-DNA hybrid with a displaced non-template DNA strand. We developed RDProx to identify proteins ...
ORGANISM(S): Homo sapiens (Human) 
2021-11-25 | PXD024517 | Pride
R-loop ddx41 
GenomicsR-loop landscapes in Arabidopsis
R-loop landscapes in Arabidopsis
PRJNA477830 | ENA
ProteomicsATAD5 regulates R-loop by maintaining RNA helicase level and unloading PCNA at the replication fork
R-loops are formed when replicative forks collide with the transcriptional machinery and can cause genomic instability. However, it is unclear how R-loops are regulated at transcription-replication conflicts (TRC) sites and how replisome proteins are regulated to prevent R-loop formation or mediate ...
ORGANISM(S): Homo sapiens (Human) 
2021-09-09 | PXD018207 | Pride
Dead-box rna helicase Atad5 R-loop Replication stress Pcna 
ProteomicsDDX17 helicase promotes resolution of R-loop-mediated transcription-replication conflicts in human cells
R-loops are three-stranded nucleic acid structures composed of an RNA:DNA hybrid and displaced DNA strand. These structures can halt DNA replication when formed co- transcriptionally in the opposite orientation to replication fork progression. Recent studies have shown that replication forks stalled...
ORGANISM(S): Homo sapiens (Human) 
2022-11-02 | PXD034331 | Pride
Dna replication stress  r-loop  helicase  genomic instability  transcription 
GenomicsR-loop landscapes in yeast meiosis
R-loop landscapes in yeast meiosis
PRJNA705491 | ENA
GenomicsR-loop associated G-quadruplexes reinforce CTCF interactions
R-loop associated G-quadruplexes reinforce CTCF interactions
PRJNA858467 | ENA
Genomicsp53-dependent R-loop formation and HPV pathogenesis
p53-dependent R-loop formation and HPV pathogenesis
PRJNA1003492 | ENA
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