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Genome-wide mapping of nucleotide excision repair with XR-seq.
Hu J, Li W, Adebali O, Yang Y, Oztas O, Selby CP, Sancar A. Hu J, et al. Among authors: sancar a. Nat Protoc. 2019 Jan;14(1):248-282. doi: 10.1038/s41596-018-0093-7. Nat Protoc. 2019. PMID: 30552409 Free PMC article.
We developed excision repair sequencing (XR-seq) to study nucleotide excision repair of DNA adducts in humans, mice, Arabidopsis thaliana, yeast and Escherichia coli. ...By contrast, an advantage of XR-seq is that the repair signal is directly detected …
We developed excision repair sequencing (XR-seq) to study nucleotide excision repair of DNA adducts in humans, mice, Arabidops …
Differential damage and repair of DNA-adducts induced by anti-cancer drug cisplatin across mouse organs.
Yimit A, Adebali O, Sancar A, Jiang Y. Yimit A, et al. Among authors: sancar a. Nat Commun. 2019 Jan 18;10(1):309. doi: 10.1038/s41467-019-08290-2. Nat Commun. 2019. PMID: 30659176 Free PMC article.
Here, by integrating genome-wide high-throughput Damage-seq, XR-seq, and RNA-seq approaches, along with publicly available epigenomic data, we systematically study the genome-wide profiles of cisplatin damage formation and excision repair in mouse kidn …
Here, by integrating genome-wide high-throughput Damage-seq, XR-seq, and RNA-seq approaches, along with publicly …
Human genome-wide repair map of DNA damage caused by the cigarette smoke carcinogen benzo[a]pyrene.
Li W, Hu J, Adebali O, Adar S, Yang Y, Chiou YY, Sancar A. Li W, et al. Among authors: sancar a. Proc Natl Acad Sci U S A. 2017 Jun 27;114(26):6752-6757. doi: 10.1073/pnas.1706021114. Epub 2017 Jun 12. Proc Natl Acad Sci U S A. 2017. PMID: 28607059 Free PMC article.
We have termed this method translesion excision repair-sequencing (tXR-seq). In contrast to our previously described XR-seq method, tXR-seq does not depend on repair/removal of the damage in the excised oligonucleotides, and thus it is applicable to es …
We have termed this method translesion excision repair-sequencing (tXR-seq). In contrast to our previously described XR-seq
Long-term, genome-wide kinetic analysis of the effect of the circadian clock and transcription on the repair of cisplatin-DNA adducts in the mouse liver.
Yang Y, Liu Z, Selby CP, Sancar A. Yang Y, et al. Among authors: sancar a. J Biol Chem. 2019 Aug 9;294(32):11960-11968. doi: 10.1074/jbc.RA119.009579. Epub 2019 Jun 19. J Biol Chem. 2019. PMID: 31217280 Free PMC article.
Here, we followed the repair kinetic for long periods genome-wide both globally and at single nucleotide resolution by the Excision Repair-sequencing (XR-seq) method to better understand cisplatin DNA damage and repair. ...
Here, we followed the repair kinetic for long periods genome-wide both globally and at single nucleotide resolution by the Excision Repair-s …
Drosophila, which lacks canonical transcription-coupled repair proteins, performs transcription-coupled repair.
Deger N, Yang Y, Lindsey-Boltz LA, Sancar A, Selby CP. Deger N, et al. Among authors: sancar a. J Biol Chem. 2019 Nov 29;294(48):18092-18098. doi: 10.1074/jbc.AC119.011448. Epub 2019 Oct 17. J Biol Chem. 2019. PMID: 31624146
A recently developed in vivo excision assay and the excision repair-sequencing (XR-Seq) method have enabled genome-wide analysis of nucleotide excision repair in various organisms at single-nucleotide resolution and in a strand-specific manner. ...
A recently developed in vivo excision assay and the excision repair-sequencing (XR-Seq) method have enabled genome-wide analys …
Cisplatin-DNA adduct repair of transcribed genes is controlled by two circadian programs in mouse tissues.
Yang Y, Adebali O, Wu G, Selby CP, Chiou YY, Rashid N, Hu J, Hogenesch JB, Sancar A. Yang Y, et al. Among authors: sancar a. Proc Natl Acad Sci U S A. 2018 May 22;115(21):E4777-E4785. doi: 10.1073/pnas.1804493115. Epub 2018 May 7. Proc Natl Acad Sci U S A. 2018. PMID: 29735688 Free PMC article.
Single-nucleotide resolution analysis of nucleotide excision repair of ribosomal DNA in humans and mice.
Yang Y, Hu J, Selby CP, Li W, Yimit A, Jiang Y, Sancar A. Yang Y, et al. Among authors: sancar a. J Biol Chem. 2019 Jan 4;294(1):210-217. doi: 10.1074/jbc.RA118.006121. Epub 2018 Nov 9. J Biol Chem. 2019. PMID: 30413533 Free PMC article.
In the present work, we have applied analytical methods to map repair events in rDNA using data generated by the newly developed XR-seq procedure, which measures excision repair genome-wide with single-nucleotide resolution. ...
In the present work, we have applied analytical methods to map repair events in rDNA using data generated by the newly developed XR- …
Genome-wide analysis of human global and transcription-coupled excision repair of UV damage at single-nucleotide resolution.
Hu J, Adar S, Selby CP, Lieb JD, Sancar A. Hu J, et al. Among authors: sancar a. Genes Dev. 2015 May 1;29(9):948-60. doi: 10.1101/gad.261271.115. Genes Dev. 2015. PMID: 25934506 Free PMC article.
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) pyri …
In XR-seq, this fragment is isolated and subjected to high-throughput sequencing. We used XR-seq to produce stra …
Genome-wide kinetics of DNA excision repair in relation to chromatin state and mutagenesis.
Adar S, Hu J, Lieb JD, Sancar A. Adar S, et al. Among authors: sancar a. Proc Natl Acad Sci U S A. 2016 Apr 12;113(15):E2124-33. doi: 10.1073/pnas.1603388113. Epub 2016 Mar 28. Proc Natl Acad Sci U S A. 2016. PMID: 27036006 Free PMC article.
We recently developed a high-resolution genome-wide assay for mapping DNA excision repair named eXcision Repair-sequencing (XR-seq) and have now used XR-seq to determine which regions of the genome are subject to repair very soon after UV exposure and …
We recently developed a high-resolution genome-wide assay for mapping DNA excision repair named eXcision Repair-sequencing (XR-seq
Single-nucleotide resolution dynamic repair maps of UV damage in Saccharomyces cerevisiae genome.
Li W, Adebali O, Yang Y, Selby CP, Sancar A. Li W, et al. Among authors: sancar a. Proc Natl Acad Sci U S A. 2018 Apr 10;115(15):E3408-E3415. doi: 10.1073/pnas.1801687115. Epub 2018 Mar 26. Proc Natl Acad Sci U S A. 2018. PMID: 29581276 Free PMC article.
We have adapted the eXcision Repair-sequencing (XR-seq) method to generate single-nucleotide resolution dynamic repair maps of UV-induced cyclobutane pyrimidine dimers and (6-4) pyrimidine-pyrimidone photoproducts in the Saccharomyces cerevisiae genome. ...
We have adapted the eXcision Repair-sequencing (XR-seq) method to generate single-nucleotide resolution dynamic repair maps of …
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