Antigen

Antigen Class

Histone

Antigen

H3K4me3

Cell type

Cell type Class

Neural

Cell type

Amygdala

MeSH Description

Almond-shaped group of basal nuclei anterior to the INFERIOR HORN OF THE LATERAL VENTRICLE of the TEMPORAL LOBE. The amygdala is part of the limbic system.

Sample

source_name

mouse adult male amygdala tissue

strain/background

F1 generation 129xB6

genotype/variation

Kmt2a-HET

gender

male

age

Adult

tissue

Amygdala

chip antibody

rabbit monoclonal H3K4me3 antibody (Thermo, clone #RM340)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Mouse amygdala tissue was dissected from adult males. Nuclei were isolated using Nuclei EZ prep Kit (Sigma, NUC-101), and counted. 20,000 nuclei were used as input. ChIP-Seq library preparation was performed as described in PMID 25607992 with two exceptions. 1) We used a kit to generate sequencing library in one-tube reactions (NEB, E7103S). 2) We spiked in the panel of synthetic nucleosomes carrying major histone methylations (EpiCypher, SKU: 19-1001). We used the rabbit monoclonal H3K4me3 antibody (Thermo, clone #RM340).

Sequencing Platform

instrument_model

NextSeq 500

mm10

Number of total reads

25691473

Reads aligned (%)

87.2

Duplicates removed (%)

55.3

Number of peaks

22950 (qval < 1E-05)

mm9

Number of total reads

25691473

Reads aligned (%)

87.2

Duplicates removed (%)

55.3

Number of peaks

22950 (qval < 1E-05)