We report the application of an parallel specific antibody, D1, for high-throughput profiling of genomic parallel G-quadruplexes in mammalian cells.ChIP-seq data together with a bioinformatic analysis revealed that parallel quadruplexes were largely presented in gene regions. Besides, consensus sequences for parallel quadruplex formation were characterized, which is presented as a G-rich sequence with a short loop size (<3nt). These results indicated that the G-rich sequences with short loops (N1-3: 55.2%) tended to form parallel G-quadruplexes in cells.Furtherly, we analyzed the association between D1 and the telomeric G-quadruplex in vivo. Here, reads consisting of more than 3 TTAGGG/CCCTAA occurrences were defined as telomeric reads. In D1 ChIP sample, the abundance of telomeric reads was 4.18-fold higher than input (Figure 3A), indicating the formation of parallel G-quadruplex at telomeres in living cells.
| Accession | PRJNA342924 |
| Data Type | Raw sequence reads |
| Scope | Multispecies |
| Submission | Registration date: 14-Sep-2016
Sun Yat-sen University |
| Relevance | Medical |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| SRA Experiments | 2 |
| Other datasets |
| BioSample | 2 |