Antigen

Antigen Class

Histone

Antigen

H3K4me2

Cell type

Cell type Class

Digestive tract

Cell type

SW 480

Primary Tissue

unresolved

Tissue Diagnosis

unresolved

Sample

source_name

SW480 Cells

genotype

LSD1 knockdown

chip antibody

H3K4me2 (Millipore, 17-677, lot 2420415)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were trypsonized prior to histone ChIP-seq (iDeal ChIP-seq Kit for Histones, Diagenode: C01010051) or scraped prior to transcription factor ChIP-seq (iDeal ChIP-seq kit for Transcription Factors, Diagenode: C01010055). Libraries were generated for sequencing using the NEBNext Ultra DNA Library Prep Kit for Illumina (NEB) per manufacturer's protocol.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

46620793

Reads aligned (%)

97.2

Duplicates removed (%)

11.1

Number of peaks

58936 (qval < 1E-05)

hg19

Number of total reads

46620793

Reads aligned (%)

96.9

Duplicates removed (%)

11.6

Number of peaks

58778 (qval < 1E-05)