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| Status |
Public on Jul 20, 2020 |
| Title |
CGGBP1-regulated cytosine methylation at CTCF-binding motifs resists stochasticity |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by high throughput sequencing
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| Summary |
To study if regulation of cytosine methylation and CTCF occupancy are interdependent and governed by the levels of CGGBP1, we specifically pulled-down methylated cytosines and found that some transcription factor binding sites including that of CTCF held out against the cytosine methylation changes. The cytosine methylation at CTCF-binding repeat-free motifs show a non-stochastic depdendence on CGGBP1 and occur at sites that mark cytosine methylation transition boundaries. We also show that allelic imbalance dictates stochastic methylation changes due to CGGBP1 depletion.
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| Overall design |
MeDIP-seq was performed on genomic DNA from CT (non-targeting RNAi) and KD (CGGBP1 knocked-down by RNAi) of both HEK293T and GM02639 cells.
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| Contributor(s) |
Patel M, Patel D, Datta S, singh U |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Feb 14, 2020 |
| Last update date |
Dec 01, 2020 |
| Contact name |
Umashankar Singh |
| Organization name |
IIT Gandhinagar
|
| Department |
Biological Sciences and Engineering
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| Lab |
HoMeCell Lab
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| Street address |
Acad Block 4 Room 317 IIT Gandhinagar Palaj
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| City |
Gandhinagar |
| State/province |
Gujarat |
| ZIP/Postal code |
382055 |
| Country |
India |
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| Platforms (1) |
| GPL17303 |
Ion Torrent Proton (Homo sapiens) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA606696 |
| SRA |
SRP249511 |
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