|
Status |
Public on Dec 12, 2016 |
Title |
K562 CD24-high sorted replicate 1 |
Sample type |
SRA |
|
|
Source name |
K562
|
Organism |
Homo sapiens |
Characteristics |
cell line: K562 cell type: high sorted
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Tagmentation was performed as previously described (Buenrostro et al., 2013) Purified DNA was barcoded using a single unique adapter (i5)
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NextSeq 500 |
|
|
Data processing |
Library strategy: ATAC-seq fastq files were aligned to the hg19 genome using Bowtie2 using the following specifications -S -X2000 -p10 -m1 --very-sensitive Duplicates were removed and library size was estimated using PICARD tools peaks were called using MACS2 with the --nomodel setting Genome_build: hg19 Supplementary_files_format_and_content: bw files for UCSC upload were generated using bedtools
|
|
|
Submission date |
Dec 21, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Howard Chang |
E-mail(s) |
howchang@stanford.edu
|
Phone |
650-725-7022
|
Organization name |
Stanford University
|
Department |
Dermatology
|
Street address |
269 Campus Drive
|
City |
Stanford |
State/province |
CA |
ZIP/Postal code |
94305 |
Country |
USA |
|
|
Platform ID |
GPL18573 |
Series (1) |
GSE76224 |
Single-cell epigenomic variability reveals functional cancer heterogeneity |
|
Relations |
BioSample |
SAMN04359738 |
SRA |
SRX1495140 |