Antigen

Antigen Class

TFs and others

Antigen

Nfia

Cell type

Cell type Class

Neural

Cell type

Hippocampus

MeSH Description

A curved elevation of GRAY MATTER extending the entire length of the floor of the TEMPORAL HORN of the LATERAL VENTRICLE (see also TEMPORAL LOBE). The hippocampus proper, subiculum, and DENTATE GYRUS constitute the hippocampal formation. Sometimes authors include the ENTORHINAL CORTEX in the hippocampal formation.

Sample

source_name

Hippocampus

strain

C57BL6

tissue

Hippocampus

age

20-weeks

chip antibody

NFIA

transfection

WT

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates from 20-week old wild type hippocampus and olfactory bulb were sonicated, and NFIA-DNA complexes were purified with antibody in triplicates. NFIA-DNA complexes were isolated from siRNA-NFIB and siRNA-scramble olfactory bulb in duplicate. DNA libraries were constructed from 5-10ng of chromatin immunoprecipitated DNA using the TruSeq ChIP library preparation kit (Cat# IP-202-1012) following the manufactures instructions. Libraries were validated on a fragment analyzer to verify successful gel extraction.

Sequencing Platform

instrument_model

NextSeq 500

mm10

Number of total reads

25906177

Reads aligned (%)

97.3

Duplicates removed (%)

23.5

Number of peaks

170 (qval < 1E-05)

mm9

Number of total reads

25906177

Reads aligned (%)

97.1

Duplicates removed (%)

23.6

Number of peaks

155 (qval < 1E-05)