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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
659
ChIP-seq
243
total RNA-seq
67
ATAC-seq
11
pCHi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
Hi-C
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
659
DNA binding
247
Transcription
68
DNA accessibility
1
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
403
transcription factor
143
histone
143
histone modification
111
control
82
recombinant protein
76
RNA binding protein
71
broad histone mark
71
narrow histone mark
33
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
153
May, 2021
122
February, 2021
85
August, 2021
68
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
October, 2019
28
December, 2018
23
January, 2019
22
February, 2023
20
November, 2019
17
March, 2020
6
November, 2020
5
January, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
840
bam
757
bigWig
568
fastq
519
bed narrowPeak
362
bigBed narrowPeak
244
tsv
60
tagAlign
59
bed broadPeak
59
bigBed broadPeak
26
bed bed3+
7
bed bedgraph
7
bedpe bed3+
6
bed bed3
hic
4
txt
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
vcf
Organism
1010
Homo sapiens
Biosample type
2525
tissue
1049
primary cell
630
cell line
384
in vitro differentiated cells
10
stem cell
Organ
415
liver
100
epithelium
95
connective tissue
79
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
4
kidney
1
adipose tissue
1
mammary gland
Project
1003
AMP
9
T1D
2
community
Genome assembly (visualization)
795
hg19
705
GRCh38
4
hg18
Lab
914
AMP-T2D consortium
52
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
185
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
43
inconsistent control read length
8
inconsistent control run_type
files.file_type!
hic
month_released!
October, 2019
BIOSAMPLE
ASSAY
1014 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
Hi-C
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
1
EndoC_BH1
15
33
19
6
2
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
+ See 10 more…
in vitro differentiated cells
adipocyte
67
5
6
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 31 more…
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