Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Bone
Cell type
Chondrocytes
MeSH Description
Polymorphic cells that form cartilage.

Attributes by original data submitter

Sample

source_name
CHON_input
msc donor
017508A
cell type
differentiated chondrocytes
chip antibody
none
differentiation time point
14

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin from hMSCs and differentiated chondrocytes were extracted using the Diagenode iDeal histone ChIP-seq kit (Diagenode SA, Ougrée, Belgium). Extracted chromatin was sonicated using a Diagenode Bioruptor Standard or Bioruptor Pico to an average size of 200-500bp, using 15 sonication cycles (30s on/30s off). Replicate 1: Diagenode MicroPLEX v2 kit, replicate 2: NEBNext Ultra II kit (New England Biolabs, Hitchin, UK)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
61900480
Reads aligned (%)
95.1
Duplicates removed (%)
74.5
Number of peaks
1284 (qval < 1E-05)

hg19

Number of total reads
61900480
Reads aligned (%)
94.0
Duplicates removed (%)
76.0
Number of peaks
1311 (qval < 1E-05)

Base call quality data from DBCLS SRA