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Series GSE145300 Query DataSets for GSE145300
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
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.
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.
Contributor(s) Patel M, Patel D, Datta S, singh U
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Submission date Feb 14, 2020
Last update date Dec 01, 2020
Contact name Umashankar Singh
Organization name IIT Gandhinagar
Department Biological Sciences and Engineering
Lab HoMeCell Lab
Street address Acad Block 4 Room 317 IIT Gandhinagar Palaj
City Gandhinagar
State/province Gujarat
ZIP/Postal code 382055
Country India
Platforms (1)
GPL17303 Ion Torrent Proton (Homo sapiens)
Samples (6)
GSM4314476 HEK293T_CT
GSM4314477 HEK293T_KD
GSM4314478 GM02639_CT
BioProject PRJNA606696
SRA SRP249511

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GSE145300_hg38_200bp_bin_ratio_diff_sum_mt_pont2.bed.gz 13.1 Mb (ftp)(http) BED
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