ChIP-Atlas: SRX190041

Sample information curated by ChIP-Atlas

Antigen

Antigen Class: Input control
Antigen: Input control

Cell type

Cell type Class: Breast
Cell type: HMEC
Primary Tissue: Breast
Tissue Diagnosis: Normal

Attributes by original data submitter

Sample

source_name: HMEC
biomaterial_provider: Lonza
lab: UW
lab description: Stamatoyannopoulous - University of Washington
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell: HMEC
cell organism: human
cell description: mammary epithelial cells
cell karyotype: normal
cell lineage: ectoderm
cell sex: U
antibody: Input
antibody description: Control signal which may be subtracted from experimental raw signal before peaks are called.
treatment: None
treatment description: No special treatment or protocol applies
control: std
control description: Standard input signal for most experiments.
controlid: wgEncodeEH000466
labexpid: DS13600
labversion: Bowtie 0.12.5
replicate: 1

Sequenced DNA Library

library_name: GSM945258: UW_ChipSeq_HMEC_Input
library_strategy: ChIP-Seq
library_source: GENOMIC
library_selection: ChIP

Sequencing Platform

instrument_model: Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads: 18473612
Reads aligned (%): 98.1
Duplicates removed (%): 2.0
Number of peaks: 540 (qval < 1E-05)

hg19

Number of total reads: 18473612
Reads aligned (%): 97.2
Duplicates removed (%): 3.5
Number of peaks: 827 (qval < 1E-05)

Base call quality data from DBCLS SRA