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MetabolomicsRepair-Associated Macrophages Increase after Early-phase Microglia Attenuation to Promote Ischemic Stroke Recovery

Ischemic stroke recovery involves dynamic interactions between the central nervous system and infiltrating immune cells. Peripheral immune cells compete with resident microglia for spatial niches in the brain, but how modulating this balance affects recovery remains unclear. Here, we use PLX5622 ...

2025-02-20 | MTBLS12240 | MetaboLights
TranscriptomicsRoles for the Transcription Elongation Factor NusA in Both DNA Repair and Damage Tolerance Pathways in Escherichia coli
Here we report our observations that have led us to propose that the transcription elongation factor NusA promotes a novel class of transcription-coupled repair (TCR) in addition to its previously proposed role in recruiting translesion synthesis (TLS) DNA polymerases to gaps encountered during tran...
ORGANISM(S): Escherichia coli 
2010-07-14 | E-GEOD-22829 | biostudies-arrayexpress
ProteomicsStructural basis of human transcription-DNA repair coupling
Transcription-coupled DNA repair (TCR) efficiently removes bulky DNA lesions from transcribed parts of the genome and constitutes a major defence against DNA damage by UV irradiation. TCR begins when RNA polymerase II (Pol II) stalls at a DNA lesion and recruits the Cockayne syndrome protein CsB, th...
ORGANISM(S): Homo sapiens (Human) Sus scrofa domesticus (domestic pig) 
2022-02-17 | PXD025328 | Pride
Protein-protein crosslinking Transcription-dna repair Ubiquitination analysis 
TranscriptomicsCPD-seq mapping of UV damage formation and repair in yeast
UV-induced DNA lesions are an important contributor to mutagenesis and cancer, but it is not fully understood how the chromosomal landscape influences UV lesion formation and repair. We have used a novel high-throughput sequencing method to precisely map UV-induced cyclobutane pyrimidine dimers (CPD...
ORGANISM(S): Saccharomyces cerevisiae 
2016-08-19 | E-GEOD-79977 | biostudies-arrayexpress
Proteomics: Arginine methylation of BRD4 by PRMT2/4 governs transcription and DNA repair
BRD4 functions as an epigenetic reader and plays a crucial role in regulating transcription and genome stability. Dysregulation of BRD4 is frequently observed in various human cancers. However, the molecular details of BRD4 regulation remain largely unknown. Here, we report that PRMT2- and PRMT4-med...
ORGANISM(S): Homo sapiens (Human) 
2023-03-11 | PXD034650 | Pride
Transcription Dna repair Arginine methylation Prmt2/4 Brd4 
ProteomicsC. elegans TFIIH subunit GTF-2H5/TTDA is a non-essential transcription factor indispensable for DNA repairC. elegans TFIIH subunit GTF-2H5/TTDA is a non-essential transcription factor indispensable for DNA repair.
The 10-subunit TFIIH complex is vital to transcription and nucleotide excision repair. Hereditary mutations in its smallest subunit, TTDA/GTF2H5, cause a photosensitive form of the rare developmental disorder trichothiodystrophy. Some trichothiodystrophy features are thought to be caused by subtle t...
ORGANISM(S): Caenorhabditis elegans 
2021-11-19 | PXD029008 | Pride
Transcription C. elegans Ip-ms Dna repair Tfiih 
ProteomicsCSB promotes transcription-coupled repair of DNA-protein crosslinks
PxP-MS (Purification of x-linked Proteins coupled to Mass Spectrometry) was used to assess the role of CSB in DNA-protein crosslink repair. The CSB protein is a sensor that can detect stalled RNA polymerases at sites of DNA damage, thereby triggering transcription-coupled repair mechanisms. DPCs wer...
ORGANISM(S): Homo sapiens (Human) 
2024-02-15 | PXD047668 | Pride
Cockayne syndrome Formaldehyde Dna damage repair Dna-protein crosslinks Csb 
ProteomicsUbiquitin ligase WWP2 targets RNA polymerase II in a DNA-PK-dependent transcription shutoff circuitry for DNA repair
DNA double-strand breaks (DSBs) at RNA polymerase II (RNAPII)-transcribed genes lead to inhibition of transcription. DNA protein kinase (DNA-PK) complex plays a pivotal role in transcription inhibition at DSBs by stimulating proteasome-dependent eviction of RNAPII at these lesions. How DNA-PK trigge...
ORGANISM(S): Homo sapiens (Human) 
2019-03-29 | PXD012606 | Pride
Human 
ProteomicsELOF1 is a transcription-coupled DNA repair factor that directs RNA polymerase II ubiquitylation
Cells employ transcription-coupled repair (TCR) to eliminate transcription-blocking DNA lesions. DNA damage-induced binding of the TCR-specific repair factor CSB to RNA polymerase II (RNAPII) triggers RNAPII ubiquitylation at a single lysine (K1268) by the CRL4CSA ubiquitin ligase. How CRL4CSA is sp...
ORGANISM(S): Homo sapiens (Human) 
2021-04-21 | PXD024051 | Pride
Tc-ner Rna polymerase ii Dna repair. Transcription 
ProteomicsAlkyladenine DNA glycosylase associates with transcription elongation to coordinate DNA repair with gene expression
Base excision repair (BER) initiated by alkyladenine DNA glycosylase (AAG; aka MPG) is essential for removal of aberrantly methylated DNA bases. Genome instability and accumulation of aberrant bases accompany multiple diseases including cancer and neurological disorders. While BER is well studied on...
ORGANISM(S): Mus musculus (Mouse) 
2020-05-26 | PXD013508 | Pride
Cancer cachexia  skeletal muscle wasting  muscle atrophy  endurance exercise  aerobic exercise 
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