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| Status |
Public on Jan 03, 2025 |
| Title |
Single-cell parallel analysis of DNA damage and transcriptome reveals selective genome vulnerability |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Other
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We used a new technology, named Paired-Damage-seq, to perform simultaneous profiling of DNA damage and mRNA on HeLa cells and mouse cortex at single-cell level.
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| Overall design |
We developed Paired-Damage-seq for joint analysis of oxidative and single-stranded DNA damage with gene expression in single cells. We applied this approach to cultured HeLa cells and the mouse brain as a proof of concept. Our results indicated the associations between damage formation and epigenetic changes. The distribution of oxidative DNA damage hotspots exhibits cell-type-specific patterns; this selective genome vulnerability, in turn, can predict cell types and dysregulated molecular programs that contribute to disease risks.
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| Web link |
https://pubmed.ncbi.nlm.nih.gov/40128288/
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| |
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| Contributor(s) |
Bai D, Cao Z, Zhu C |
| Citation(s) |
40128288 |
| |
| Submission date |
May 29, 2024 |
| Last update date |
Apr 04, 2025 |
| Contact name |
Dongsheng Bai |
| E-mail(s) |
dbai@nygenome.org
|
| Phone |
5512606182
|
| Organization name |
New York Genome Center
|
| Lab |
Chenxu Zhu
|
| Street address |
101 Avenue of the Americas
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10013 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (30)
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| This SuperSeries is composed of the following SubSeries:
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| GSE268551 |
Single-cell joint analysis of DNA oxidative damage and transcriptome [ATAC-seq] |
| GSE268552 |
Single-cell joint analysis of DNA oxidative damage and transcriptome [bulk damage] |
| GSE268553 |
Single-cell joint analysis of DNA oxidative damage and transcriptome [Hela RNA] |
| GSE268554 |
Single-cell joint analysis of DNA oxidative damage and transcriptome [Hela paired damage] |
| GSE268562 |
Single-cell joint analysis of DNA oxidative damage and transcriptome [Cortex paired-damage] |
|
| Relations |
| BioProject |
PRJNA1117815 |
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