Dataset features

Specifications


Application: BS-seq analysis
Number of samples: 65
Release date: Feb 12 2017
Last update date: Oct 24 2018
Access: Public
Genes: GPR161
Dataset link Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells

Experimental Protocol


We designed 2 protocols (protocol option 1 - BstUI as RE2, and protocol option2 - ABH as RE2, while other steps were the same) for LQC processing (30 samples with 100Cell or 10cell), and the option 2 above was used for SC (8 samples for K562 and GM12878 separately, totally 16 samples). The corresponding Methylation Controls (MCs, for which no RE1 was applied but all other processes were the same as the TEST) were also generated corresponding to each set of TEST samples. The sequencing data was analyzed, and compared with the published ENCODE data generated with RRBS or Infinium HumanMethylation450 BeadChip methods with bulk cells, for CpG islands, promoters and other informative sequencing fragments. These data were also subject to unsupervised clustering analysis of the cells.

Repositories


GEO

GSE75346

ENA

SRP066615

BioProject

PRJNA303995

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Contact


Xinghua Pan

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