GSM3308268: IBC H3K4me3 Std PAT-ChIP; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K4me3
Cell type
Cell type Class
Breast
Cell type
Breast cancer cells
NA
NA
Attributes by original data submitter
Sample
source_name
FFPE tissue
tissue
Invasive breast carcinoma
antibody
H3K4me3 (Active Motif, 39159, Lot. 01609004)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was extracted from FFPE sections of 10 µm thickness using the ePAT-ChIP protocol ChIP DNA was blunt-ended and phosphorylated, and a single 'A' nucleotide was added to the 3' ends of the fragments in preparation for ligation to adapters that have a single-base 'T' overhang using enzymes and reagents from NEB (New England Biolabs). The ligation products were purified and size-selected by Agencourt AMPure XP beads (Beckman Coulter). Purified DNA was PCR-amplified with PfuUltra II Fusion HS DNA Polymerase (Agilent Technologies) to enrich for fragments that have adapters on both ends. The final purified product was then quantitatively and qualitatively checked on Bioanalyzer 2100 (Agilent Technologies). Libraries with distinct adapter indexes were multiplexed (1/5 libraries per lane) and after cluster generation on FlowCell were sequenced for 50 bases in the single read mode on a HiSeq 2000 sequencer (Illumina Inc.).