SRX5527890
GSM3673642: UPF1 ChIP-seq; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
UPF1

Cell type

Cell type Class
Breast
Cell type
Breast cancer cells
NA
NA

Attributes by original data submitter

Sample

source_name
Breast cancer cells
cell type
epithelial
tissue
mammary gland, breast; derived from metastatic site: pleural effusion
disease
adenocarcinoma
age
69 years adult
chip antibody
Anti-RENT1 (UPF1) (Bethyl Laboratories, A301-902A)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The DNAs and RNAs pulled down with proteins were purified by phenol-chloroform extraction and precipitated in ethanol. ChIP-seq libraries were constructed using TruSeq Strandard library protocols.

Sequencing Platform

instrument_model
NextSeq 500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
54530504
Reads aligned (%)
93.6
Duplicates removed (%)
89.7
Number of peaks
1479 (qval < 1E-05)

hg19

Number of total reads
54530504
Reads aligned (%)
92.9
Duplicates removed (%)
91.3
Number of peaks
1307 (qval < 1E-05)

Base call quality data from DBCLS SRA