ChIP-Atlas: SRX100566

Sample information curated by ChIP-Atlas

Antigen

Antigen Class: Input control
Antigen: Input control

Cell type

Cell type Class: Liver
Cell type: Hep G2
Primary Tissue: Liver
Tissue Diagnosis: Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name: HepG2
biomaterial_provider: ATCC
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: hepatocellular carcinoma
protocol description: one 15-cycle round of PCR (Myers)
controlid: SL819,SL1400,SL593,SL1401
labexpid: SL819,SL1400,SL593,SL1401
labversion: SL819,SL593
replicate: 1,3,2,4
cell lineage: endoderm
cell sex: M
antibody: RevXlinkChromatin
treatment: None
treatment description: No special treatment or protocol applies
protocol: PCR1x
protocol description: 1-cycle of PCR (Myers)
controlid: SL593
labexpid: SL593
replicate: 1
replicate description: tier 1

Sequenced DNA Library

library_name: GSM803521: HudsonAlpha_ChipSeq_HepG2_RevXlinkChromatin_PCR1x
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: 261994120
Reads aligned (%): 49.5
Duplicates removed (%): 45.1
Number of peaks: 2408 (qval < 1E-05)

hg19

Number of total reads: 261994120
Reads aligned (%): 48.9
Duplicates removed (%): 46.5
Number of peaks: 1977 (qval < 1E-05)

Base call quality data from DBCLS SRA