ChIP-Atlas: SRX1123811

Sample information curated by ChIP-Atlas

Antigen

Antigen Class: Histone
Antigen: H3K4me1

Cell type

Cell type Class: Unclassified
Cell type: Unclassified
NA: NA

Attributes by original data submitter

Sample

source_name: RT230
tissue id: RT230
tissue source/type: primary brain rhabdoid tumor tissue
chip antibody: H3K4me1 (Abcam, ab8895)

Sequenced DNA Library

library_strategy: ChIP-Seq
library_source: GENOMIC
library_selection: ChIP
library_construction_protocol: lysis (SDS) of sonicated (Branson) nuclei, ChIP with antibodies and Dynabeads single read Illumina

Sequencing Platform

instrument_model: Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads: 25440432
Reads aligned (%): 97.8
Duplicates removed (%): 62.0
Number of peaks: 1061 (qval < 1E-05)

hg19

Number of total reads: 25440432
Reads aligned (%): 97.5
Duplicates removed (%): 62.6
Number of peaks: 1090 (qval < 1E-05)

Base call quality data from DBCLS SRA