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| Status |
Public on Jun 27, 2017 |
| Title |
Dynamic Maps of UV Damage Formation and Repair for the Human Genome |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
UV-induced DNA damage is the major carcinogen of skin cancer. We developed HS-Damage-seq to map UV damage with unprecedented sensitivity and resolution in human cells. While the distribution of UV-induced damage are mainly determined by sequence context and essentially uniform throughout the genome, transcription factors can affect damage formation at specific positions. With time-course experiments, we observed changes in damage distribution at particular genomic loci and chromatin states, which reflects the nucleotide excision repair preferences and complements the repair maps by XR-seq. Our results demonstrated that while initial damage is uniformly distributed, they are heterogeneously repaired throughout the genome. The combination of damage and repair maps provides a holistic perspective of UV damage and repair in the human genome.
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| Overall design |
38 samples were analyzed for (6-4)PP and CPD. Two main experiments were performed: time-course (with NHF1 cell line) and cell vs naked DNA (with GM12878 cell line). Each sample has a biological replicate. We also have control samples which are the undamaged samples and reference genome samples for two cell lines.
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| Contributor(s) |
Hu J, Adebali O, Adar S, Sancar A |
| Citation(s) |
28607063 |
| |
| Submission date |
Apr 20, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Ogun Adebali |
| Organization name |
Sabanci University
|
| Department |
Faculty of Natural Sciences and Engineering
|
| Lab |
Adebali Lab
|
| Street address |
Orta Mah. Universite Cad No 27
|
| City |
Istanbul |
| ZIP/Postal code |
34956 |
| Country |
Turkey |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (38)
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| Relations |
| BioProject |
PRJNA383707 |
| SRA |
SRP104427 |
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