Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 12
Release date: Dec 12 2016
Last update date: Oct 26 2018
Access: Public
Diseases: Neoplasms, Self Mutilation
Genes: CD24, QRSL1, GATA1, GATA2
Dataset link Single-cell epigenomic variability reveals functional cancer heterogeneity

Experimental Protocol


Cells were maintained at 37° C and 5% CO2 at recommended density and were harvested at mid-log phase. After harvest, K562 cells were stained with CD24-PE (BD Biosciences) antibody and sorted using a BD FACSAriaII for CD24-high and CD24-low expressing cells. 50 000 sorted cells for each replicate were washed, lysed, and tagmented using the standard ATAC-seq protocol (Buenrostro et al., 2013). Libraries were purified using Qiagen MinElute columns and quality was checked using Bioanalyzer. High-Throughout Sequencing was performed on a NextSeq Illumina machine using the NextSeq 500 kit. Settings were 75x75 cycles, paired end.

Repositories


GEO

GSE76224

ENA

SRP067660

BioProject

PRJNA306685

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Contact


Howard Chang

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