ChIP-Atlas: SRX199874

Sample information curated by ChIP-Atlas

Antigen

Antigen Class: Input control
Antigen: Input control

Cell type

Cell type Class: Muscle
Cell type: SKMC
Tissue: muscle
Lineage: mesoderm
Description: skeletal muscle cells

Attributes by original data submitter

Sample

source_name: SKMC
biomaterial_provider: Lonza
lab: UW
lab description: Stamatoyannopoulous - University of Washington
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell: SKMC
cell organism: human
cell description: skeletal muscle cells
cell karyotype: normal
cell lineage: mesoderm
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: wgEncodeEH002173
labexpid: DS16208
labversion: WindowDensity-bin20-win+/-75
replicate: 1

Sequenced DNA Library

library_name: GSM1022646: UW_ChipSeq_SKMC_InputRep1
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: 26058656
Reads aligned (%): 98.5
Duplicates removed (%): 1.8
Number of peaks: 926 (qval < 1E-05)

hg19

Number of total reads: 26058656
Reads aligned (%): 97.3
Duplicates removed (%): 3.2
Number of peaks: 1028 (qval < 1E-05)

Base call quality data from DBCLS SRA