Antigen

Antigen Class

Histone

Antigen

H3K27ac

Cell type

Cell type Class

Neural

Cell type

Entorhinal Cortex

MeSH Description

Cerebral cortex region on the medial aspect of the PARAHIPPOCAMPAL GYRUS, immediately caudal to the OLFACTORY CORTEX of the uncus. The entorhinal cortex is the origin of the major neural fiber system afferent to the HIPPOCAMPAL FORMATION, the so-called PERFORANT PATHWAY.

Sample

source_name

Entorhinal cortex

disease status

AD

age at death

87

Sex

female

neuronal proportion estimate

0.170135435

chip antibody

H3K27ac (Diagenode, catalog #C15410196, lot# A1723-0041D)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared using the MicroPlex Library Preparation kit v2 (Diagenode, Cat #C05010013) according to the manufacturer’s protocol. Libraries were sequenced on the on an Illumina HiSeq-2500 using single-end sequencing and a read length of 50bp.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

42686170

Reads aligned (%)

98.5

Duplicates removed (%)

22.7

Number of peaks

2601 (qval < 1E-05)

hg19

Number of total reads

42686170

Reads aligned (%)

97.9

Duplicates removed (%)

23.7

Number of peaks

2539 (qval < 1E-05)