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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
130
ChIP-seq
84
ATAC-seq
22
DNase-seq
10
RRBS
9
Hi-C
1
FAIRE-seq
1
pCHi-C
Assay category
130
DNA binding
107
DNA accessibility
10
DNA methylation
9
3D chromatin structure
Target of assay
116
histone
116
histone modification
62
narrow histone mark
54
broad histone mark
10
RNA binding protein
10
transcription factor
4
control
1
chromatin remodeller
Date released
47
August, 2017
46
September, 2018
45
May, 2020
40
June, 2019
24
October, 2019
13
July, 2019
13
May, 2021
9
November, 2017
5
September, 2017
4
May, 2019
3
August, 2021
3
October, 2022
2
February, 2021
2
November, 2020
1
March, 2020
Available data
394
bam
381
bigWig
226
fastq
174
bed narrowPeak
tsv
102
bigBed narrowPeak
42
bed broadPeak
42
bigBed broadPeak
28
bed bed3+
15
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
tar
Organism
257
Homo sapiens
Biosample type
819
tissue
425
cell line
257
primary cell
165
in vitro differentiated cells
3
stem cell
Organ
117
epithelium
83
pancreas
29
vasculature
23
blood vessel
19
connective tissue
19
kidney
18
brain
17
vein
10
musculature of body
8
liver
6
heart
4
eye
Project
254
AMP
3
HPAP
Genome assembly (visualization)
257
hg19
200
GRCh38
Lab
254
AMP-T2D consortium
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
31
inconsistent ontology term
4
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
files.file_type!
tsv
BIOSAMPLE
ASSAY
257 results
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ChIP-seq
ATAC-seq
DNase-seq
RRBS
Hi-C
FAIRE-seq
pCHi-C
primary cell
pancreatic endocrine cell
23
skeletal muscle myoblast
15
2
1
endothelial cell of umbilical vein
12
2
2
1
pancreatic ductal cell
13
4
monocyte
15
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