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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 
ProteomicsQuantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival of colorectal cancer Stage III patients
Surgical resection is the major clinical intervention for Stage III colorectal cancer (CRC) currently. However, as much as 30.8% of the patients who had ever taken curative resection came out of recurrence eventually. Therefore, to facilitate formulating effective treatment plans, there is an intens...
ORGANISM(S): Homo sapiens (Human) 
2016-06-20 | PXD002903 | Pride
Transgelin. Stage iii colorectal cancer Prognostic biomarker Post-surgical recurrence R-ras Quantitative proteomics 
ProteomicsCRISPR screening reveals that RNA helicase DDX41 triggers ribosome biogenesis and cancer progression through R-loop-mediated RPL/RPS transcription
The RNA helicase DDX41 is a DEAD-box helicase that is well known as a virus sensor in dendritic cells and a tumor suppressor that is frequently mutated in myeloid neoplasms. However, the functions and relevance of DDX41 in solid tumors remain largely unexplored. In this study, through in vivo CRISPR...
ORGANISM(S): Homo Sapiens 
2024-12-23 | PXD059178 |
TranscriptomicsSplicing function of mitotic regulators links R-loop mediated DNA damage to tumor cell killing
We discovered that two mitotic regulators, BuGZ and Bub3, involved in splicing regulation during interphase 8 samples from primary Human foreskin fibroblast cells (HFFs) , 12 samples from TOV21G cells. Control siRNA. BuGZ siRNA or Bub3 siRNA were transfected for 48 h before sample collection. Cells ...
ORGANISM(S): Homo sapiens 
2015-04-11 | E-GEOD-67770 | biostudies-arrayexpress
GenomicsZea mays subsp. mays cultivar:W22
W22 (C1:R-r:std - PI 674445) Sequence and Assembly
PRJNA311133 | ENA
TranscriptomicsGene expression analysis for Oregon R embryos at different developmental stages.
The transcription profiles of newly mapped Drosophila heterochromatic sequences during early embryonic stages were investigated by microarray. cDNA were prepared from manually staged wild type Oregon R embryos at various developmental stages (0-1 hr, 2-2.5 hr/cycle 13-early cycle 14, 2.5-3 hr/mid- t...
ORGANISM(S): Drosophila melanogaster 
2012-03-06 | E-GEOD-36265 | biostudies-arrayexpress
GenomicsspKAS-seq reveals R-loop dynamics using low-input materials by detecting single-stranded DNA with strand specificity
spKAS-seq reveals R-loop dynamics using low-input materials by detecting single-stranded DNA with strand specificity
PRJNA793268 | ENA
UnknownMolecular cloning and characterization of two pig vasoactive intestinal polypeptide receptors (VPAC1-R and VPAC2-R).
Not available
S-EPMC3967372 | biostudies-literature
UnknownQuality-controlled R-loop meta-analysis reveals the characteristics of R-loop consensus regions.
Not available
S-EPMC9303298 | biostudies-literature
UnknownCrystal structure of (R)-N-benzyl-1-phenylethanaminium (R)-4-chloro-mandelate.
Not available
S-EPMC4257388 | biostudies-literature
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