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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1009
total RNA-seq
677
ChIP-seq
242
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
21
pCHi-C
16
small RNA-seq
11
RRBS
6
Hi-C
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1205
Transcription
677
DNA binding
276
DNA accessibility
38
DNA methylation
6
3D chromatin structure
Target of assay
425
histone modification
424
histone
244
broad histone mark
180
narrow histone mark
160
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
258
August, 2017
October, 2019
228
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
80
April, 2019
77
July, 2019
76
November, 2017
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
39
November, 2019
33
March, 2020
25
February, 2020
19
April, 2020
19
October, 2017
17
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1721
bam
1612
bigWig
1068
tsv
833
bed narrowPeak
514
bigBed narrowPeak
377
fastq
bed broadPeak
201
bed bed3+
189
tagAlign
172
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
2314
Homo sapiens
Biosample type
2317
tissue
1005
primary cell
cell line
380
in vitro differentiated cells
10
stem cell
Organ
542
connective tissue
484
adipose tissue
479
pancreas
351
liver
276
heart
227
kidney
158
bone element
143
brain
103
blood vessel
103
vasculature
45
artery
35
musculature of body
32
eye
24
spleen
21
limb
20
lung
16
skeleton
15
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
nerve
1
ovary
1
pericardium
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2220
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1511
GRCh38
1392
hg19
Lab
1968
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
88
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
24
missing controlled_by
Audit category:
6
inconsistent control read length
biosample_type!
cell line
files.file_type!
bed broadPeak
bedpe bed3+
month_released!
October, 2019
BIOSAMPLE
ASSAY
2317 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
small RNA-seq
RRBS
Hi-C
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
278
44
53
6
7
1
1
1
4
1
adipose tissue
382
2
2
3
1
liver
166
140
20
1
3
1
1
1
kidney
49
23
75
64
6
1
1
1
bone element
84
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