Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
Olfactory Nerve
MeSH Description
The 1st cranial nerve. The olfactory nerve conveys the sense of smell. It is formed by the axons of OLFACTORY RECEPTOR NEURONS which project from the olfactory epithelium (in the nasal epithelium) to the OLFACTORY BULB.

Attributes by original data submitter

Sample

source_name
mature olfactory sensory neurons
cell type
mature olfactory sensory neurons
genotype
OMP-IRES-GFP
chip antibody
N/A
extract_protocol
Native-ChIP

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked-ChIP: Chromatin from formaldehyde cross-linked cells was sheared on a Covaris S220 Focused-ultrasonicator to a size range of 200-500bp. Approximately 1-2ug of sheared chromatin was used for immunoprecipitation with antibodies, and precipitated DNA was column purified. Native-ChIP: Native chromatin was digested with Micrococal Nuclease to predominantly mono and di-nucleosome sized fragments. Nucleosomal DNA was immunoprecipitated with antibodies and column purified. ATAC: Cells were lysed and then transposed with Nextera Tn5 transposase (Illumina). Transposed DNA was column purified using a Qiagen MinElute PCR cleanup kit. RNA: Cells were lysed in Trizol-LS (ThermoFisher) then RNA was extracted and treated with Turbo-DNase (ThermoFisher). Crosslinked-ChIP: ChIP-seq Libraries were prepared using a Nugen Ultralow V2 kit. Native-ChIP: ChIP-seq Libraries were prepared using a Nugen Ultralow V2 kit. ATAC: Transposed DNA was amplified using barcoded primers and NEBNext High-Fidelity PCR Master Mix. RNA: RNA-seq libraries were prepared using a TruSeq Stranded Total RNA with Ribo-Zero Gold Set B kit (Illumina RS-122­2302).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
44611944
Reads aligned (%)
97.1
Duplicates removed (%)
9.0
Number of peaks
164 (qval < 1E-05)

mm9

Number of total reads
44611944
Reads aligned (%)
96.9
Duplicates removed (%)
9.4
Number of peaks
152 (qval < 1E-05)

Base call quality data from DBCLS SRA