Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Embryo

Cell type

Neural Crest

MeSH Description

Neuroectodermal cells of the neural crest. They differentiate into various cell types during EMBRYOGENESIS including craniofacial MESENCHYME; ENDOCRINE CELLS; MELANOCYTES and PERIPHERAL NERVOUS SYSTEM.

Sample

source_name

O9-1 Primary Cranial Neural Crest Line

Stage

Isolated Embryonic day E8.5 line

tissue

Wnt1-Cre, Rosa-GFP flow sorted cranial neural crest

genotype

WT Wnt1-Cre: wt

antibody

Input, none

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For RNA isolation, cranial neural crest were sorted into Trizol LS and processed accordingly. For ChIP, sorted cranial neural crest were pelleted in PBS, frozen cell pellets were thawed, digested with Micrococcal Nuclease, and antibody ChIP isolated histone-DNA complexes. For O9-1 ChIP, cells were fixed with 0.3% Formaldehyde for 30 minutes at 4 degrees, nuclei were isolated by Dounce homogenization, digested with Micrococcal Nuclease, and antibody ChIP isolated histone-DNA complexes. RNA-seq: KAPA KK8420 Stranded mRNA-seq Kit for mRNA isolation, cDNA production, Illumina TruSeq adapter ligation, and library amplification. For ChIP-seq: KAPA KK8502 Hyper Prep Kit for Illumina TruSeq adapter ligation and library amplification.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

18101612

Reads aligned (%)

100.0

Duplicates removed (%)

2.4

Number of peaks

48 (qval < 1E-05)

mm9

Number of total reads

18101612

Reads aligned (%)

100.0

Duplicates removed (%)

2.4

Number of peaks

38 (qval < 1E-05)