SRX527430
GSM1374122: LSD1, ChIPseq, PC-3M-luc cells, biological replicate 1; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
KDM1A

Cell type

Cell type Class
Prostate
Cell type
PC-3
Primary Tissue
Prostate
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
PC-3M-luc cells
cell line
PC-3M-luc
cell type
human prostate carcinoma cell line
genotype
Control
passages
17-20
chip antibody
LSD1
chip antibody vendor
Abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
PMID: 18066052 Libraries were prepared from immunoprecipitated DNA according to standard methods. ChIP-seq libraries were sequenced using a HiSeq 2000 (Illumina) and mapped to the hg19 reference genome using bowtie 2 PMID:19261174

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

hg19

Number of total reads
31603654
Reads aligned (%)
93.5
Duplicates removed (%)
4.0
Number of peaks
12475 (qval < 1E-05)

hg38

Number of total reads
31603654
Reads aligned (%)
95.1
Duplicates removed (%)
3.0
Number of peaks
12463 (qval < 1E-05)

Base call quality data from DBCLS SRA