Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GLI1

Cell type

Cell type Class
Bone
Cell type
Chondrosarcoma
MeSH Description
A slowly growing malignant neoplasm derived from cartilage cells, occurring most frequently in pelvic bones or near the ends of long bones, in middle-aged and old people. Most chondrosarcomas arise de novo, but some may develop in a preexisting benign cartilaginous lesion or in patients with ENCHONDROMATOSIS. (Stedman, 25th ed)

Attributes by original data submitter

Sample

source_name
chondrosarcoma
tissue
chondrosarcoma
culture
primary cells
treatment
Shh ligand
duration
48 hours
chip antibody
anti-Gli1 (R&D catalog number AF3324)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Samples were subjected to chromatin immunoprecipitation and prepared for sequencing using the Active Motif ChIP-IT kit, according to the manufacturer's instructions. Libraries were prepared according to the Illumina protocol at The Centre for Applied Genomics at The Hospital for Sick Children.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg19

Number of total reads
37864317
Reads aligned (%)
69.1
Duplicates removed (%)
96.3
Number of peaks
289 (qval < 1E-05)

hg38

Number of total reads
37864317
Reads aligned (%)
70.0
Duplicates removed (%)
95.1
Number of peaks
294 (qval < 1E-05)

Base call quality data from DBCLS SRA