Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryonic fibroblast
Cell type
MEF
Tissue
Embryonic Fibroblast
Lineage
primaryCells
Description
Mouse Embryonic Fibroblast

Attributes by original data submitter

Sample

source_name
mouse embryonic fibroblast cells E13.5
cell type
MEF
passages
1
chip antibody
None
genotype
wild type

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq: 10min formaldehyde fixation followed by sonication (histone marks) or Mnase digestion (transcription factors). Immunoprecipitation was performed using ChIP-IT kit (#53040, Active Motif) following manufacturer's protocol. Experiments were done in duplicates. Libraries prepared using Microplex library Preparation kit v2 (C05010014, Diagenode) following manufacturer's protocol (V2 02.15). Libraries were size-selected (200-400bp) and clenaed-up using Agencourt AMPure XP beads (#A63881, Beckman).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
51749883
Reads aligned (%)
97.3
Duplicates removed (%)
34.4
Number of peaks
22394 (qval < 1E-05)

mm9

Number of total reads
51749883
Reads aligned (%)
96.9
Duplicates removed (%)
34.3
Number of peaks
22586 (qval < 1E-05)

Base call quality data from DBCLS SRA