Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Muscle
Cell type
C2C12
Primary Tissue
Skeletal Muscle
Tissue Diagnosis
NOS

Attributes by original data submitter

Sample

source_name
C2C12_MLXWT-INPUT
cell line
C2C12
cell type
myoblasts
transduced with
MLX WT

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-sequencing, libraries were prepared from 10 ng DNA using the NEB Next ChIP-Seq Library Prep Reagent Set for Illumina with NEB Next High-Fidelity 2x PCR Master Mix according to the manufacturer’s instructions (New England Biolabs) with the following modifications: a second 1:1 Ampure cleanup was added after adaptor ligation; the Ampure size selection step prior to PCR was eliminated; the 72C extension step of the PCR was lengthened to 45 s. Completed libraries were analyzed for insert size distribution on a 2100 BioAnalyzer High Sensitivity kit (Agilent Technologies) or Caliper LabChip GX DNA High Sensitivity Reagent Kit (PerkinElmer) Libraries were quantified using the Quant-iT PicoGreen dsDNA assay (Life Technologies) and Kapa Library Quantificaiton kit (Kapa Biosystems) or low pass sequencing on a MiSeq nano kit (Illumina). Fifty cycle single end sequencing was performed on an Illumlina HiSeq 2500 for DNA obtained from MLX-WT and MLX-DN samples immunoprecipitated for acetylated histone H4 with three replicates for each sample including input chromatin as control.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
35879504
Reads aligned (%)
98.2
Duplicates removed (%)
11.9
Number of peaks
597 (qval < 1E-05)

mm9

Number of total reads
35879504
Reads aligned (%)
97.9
Duplicates removed (%)
11.9
Number of peaks
663 (qval < 1E-05)

Base call quality data from DBCLS SRA