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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
682
ChIP-seq
249
total RNA-seq
71
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
3
DNase-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
682
DNA binding
253
Transcription
74
DNA accessibility
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
410
transcription factor
150
histone
150
histone modification
120
control
89
recombinant protein
76
RNA binding protein
75
broad histone mark
74
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
35
October, 2019
27
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
873
bam
780
bigWig
567
fastq
536
bed narrowPeak
372
bigBed narrowPeak
250
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
27
bed bed3+
7
bed bedgraph
6
bed bed3
4
txt
3
bedpe bed3+
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
vcf
Organism
1044
Homo sapiens
Biosample type
2721
tissue
1078
primary cell
658
cell line
390
in vitro differentiated cells
10
stem cell
Organ
414
liver
102
epithelium
97
connective tissue
93
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
1037
AMP
9
T1D
2
community
Genome assembly (visualization)
820
hg19
728
GRCh38
4
hg18
Lab
948
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:
202
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
assay_slims!
3D chromatin structure
BIOSAMPLE
ASSAY
1048 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
DNase-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
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
Panc1
13
1
+ See 14 more…
in vitro differentiated cells
adipocyte
67
5
8
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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