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SRX4501270: GSM3317488: HCT116_WT_WGBS; Homo sapiens; Bisulfite-Seq
1 ILLUMINA (Illumina HiSeq 4000) run: 288.1M spots, 86.4G bases, 34.9Gb downloads

Submitted by: NCBI (GEO)
Study: MethMotif: An integrative cell specific database of transcription factor binding motifs coupled with DNA methylation profiles
show Abstracthide Abstract
Integration of whole-genome bisulfite sequencing with ChIPseq datasets. Overall design: DNA methylation profiles of transcription factor binding sites.
Sample: HCT116_WT_WGBS
SAMN09760121 • SRS3622037 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 4000
Strategy: Bisulfite-Seq
Source: GENOMIC
Selection: RANDOM
Layout: PAIRED
Construction protocol: The DNA was extracted using Qiagen DNeasy Blood & Tissue Kits. After samples DNA testing, negative control DNAs were added into the initial DNA pool, and then fragmented into a 200-300bp range using Covaris S220. Next, terminal repairing, A-ligation, methylation sequencing adapters ligation were performed to DNA fragments. Then, DNA fragments undergone a bisulfite treatment using the EZ DNA Methylation Gold Kit from Zymo Research. Library concentration was firstly quantified by Qubit 2.0, and then is diluted to 1 ng/ul before an insert size verification using the Agilent Bioanalyzer 2100 and followed by Q-PCR. Finally, the library was paired-end sequenced using the Illumina HiSeq 4000.
Experiment attributes:
GEO Accession: GSM3317488
Links:
Runs: 1 run, 288.1M spots, 86.4G bases, 34.9Gb
Run# of Spots# of BasesSizePublished
SRR7637726288,124,01686.4G34.9Gb2018-09-25

ID:
6097816

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