Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

UV-induced (6-4)PP and CPD XR-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans

ABSTRACT: XR-seq was performed to map the repair of UV-induced photoproducts.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE280349 | GEO | 2024/10/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

UV-induced (6-4)PP and CPD XR-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans

Project description:UV-induced (6-4)PP and CPD XR-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans

| PRJNA1177894 | ENA

(6-4)PP and CPD Damage-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans

Project description:Damage-seq was performed to generate the damage map.

2024-10-30 | GSE280347 | GEO

Genome-wide CPD repair maps of Caenorhabditis elegans

Project description:We have adapted the eXcision Repair-sequencing (XR-seq) method to generate single-nucleotide resolution dynamic repair maps of UV-induced cyclobutane pyrimidine dimers (CPD) photoproducts in the Caenorhabditis elegans (C. elegans) genome.

2024-04-02 | GSE262486 | GEO

RNA-seq for L1 stage wildtype, csb-1 and xpc-1 C.elegans

Project description:RNA-seq analysis was conducted to quantify the gene expression levels in each strain.

2024-10-30 | GSE280348 | GEO

Genome-wide analysis of human global and transcription-coupled excision repair of UV damage at single-nucleotide resolution

Project description:We developed a method for genome-wide mapping of DNA excision repair named XR-seq (eXcision Repair-seq). Human nucleotide excision repair generates two incisions surrounding the site of damage, creating a ~30-mer. In XR-seq, this fragment is isolated and subjected to high-throughput sequencing. We used XR-seq to produce stranded, nucleotide-resolution maps of repair of two UV-induced DNA damages in human cells, cyclobutane pyrimidine dimers (CPDs) and (6-4) pyrimidine-pyrimidone photoproducts ((6-4)PPs). In wild-type cells, CPD repair was highly associated with transcription, specifically with the template strand. Experiments in cells defective in either transcription-coupled excision repair or general excision repair isolated the contribution of each pathway to the overall repair pattern, and showed that transcription-coupled repair of both photoproducts occurs exclusively on the template strand. XR-seq maps capture transcription-coupled repair at sites of divergent gene promoters and bi-directional eRNA production at enhancers. XR-seq data also uncovered the repair characteristics and novel sequence preferences of CPDs and (6-4)PPs. XR-seq and the resulting repair maps will facilitate studies of the effects of genomic location, chromatin context, transcription, and replication on DNA repair in human cells. We have performed XR-seq for two types of UV-induced damages (CPD and (6-4)PP) in three different cell lines: NHF1, XP-C (XP4PA-SV-EB, GM15983)), and CS-B (CS1ANps3g2, GM16095). Two biological replicates were performed for each experiment, in which independent cell populations were UV treated and subjected to XR-seq.

2015-04-19 | E-GEOD-67941 | biostudies-arrayexpress

X-radiation (XR) resistant HCT116-Clone2: XR at 0 and 4 Gy

Project description:cDNA microarray study of X-radiation (XR) resistant HCT116-Clone2 cells without XR, 10 minutes, 6 hours, or 24 hours after XR at 4Gy versus unirradiated HCT116-Clone10 cells. HCT116-Clone10 cells have similar XR response with parental HCT116 cells. This SuperSeries is composed of the following subset Series: GSE798: Unirradiated HCT116-Clone2 cells GSE799: HCT116-Clone2 cells 10 min after XR treatment at 4 Gy GSE800: HCT116-Clone2 cells 6 hours after XR treatment at 4 Gy GSE801: HCT116-Clone2 cells 24 hours after XR treatment at 4 Gy Refer to individual Series

2010-06-09 | E-GEOD-797 | biostudies-arrayexpress

(6-4)PP and CPD Damage-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans

Project description:(6-4)PP and CPD Damage-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans

| PRJNA1177895 | ENA

Genome-wide analysis of human global and transcription-coupled excision repair of UV damage at single-nucleotide resolution

2015-04-19 | GSE67941 | GEO

X-radiation (XR) sensitive HCT116-CloneK: XR at 0 and 4 Gy

Project description:cDNA microarray study of X-radiation (XR) sensitive HCT116-CloneK cells without XR, 10 minutes, 6 hours, or 24 hours after XR at 4Gy versus unirradiated HCT116-Clone10 cells. HCT116-Clone10 cells have similar XR response with parental HCT116 cells. Keywords = X-radiation (XR), XR sensitive, colorectal cancer cells, HCT1116 Keywords: time-course

2003-12-08 | GSE522 | GEO

X-radiation (XR) resistant HCT116-Clone2: XR at 0 and 4 Gy

2004-06-04 | GSE797 | GEO