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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1117
total RNA-seq
910
ChIP-seq
244
ATAC-seq
175
DNase-seq
172
single cell RNA-seq
87
RNA microarray
27
WGBS
25
pCHi-C
17
Hi-C
17
snATAC-seq
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
GRO-seq
4
MeRIP-seq
3
snDrop-seq
2
Capture-C
Assay category
1305
Transcription
910
DNA binding
440
DNA accessibility
38
DNA methylation
17
3D chromatin structure
Target of assay
572
histone modification
571
histone
320
broad histone mark
250
narrow histone mark
197
control
143
transcription factor
39
RNA binding protein
5
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
571
February, 2021
352
August, 2017
271
August, 2021
October, 2019
193
May, 2020
172
May, 2021
163
June, 2019
120
July, 2018
115
May, 2019
111
February, 2023
91
December, 2017
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
May, 2022
47
March, 2020
47
September, 2023
45
November, 2019
40
May, 2024
39
February, 2018
26
November, 2018
25
February, 2020
23
October, 2017
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
January, 2018
6
September, 2017
5
December, 2019
5
March, 2019
4
November, 2020
1
August, 2018
1
August, 2022
Available data
1984
bam
1847
bigWig
1196
tsv
925
bed narrowPeak
529
bigBed narrowPeak
494
fastq
229
tagAlign
225
bed bed3+
210
bed broadPeak
173
bigBed broadPeak
153
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
14
bedpe bed3+
12
hic
10
bed bed3
7
bed bedgraph
6
csv
2
ibed
1
bedpe
Organism
2827
Homo sapiens
Biosample type
2449
tissue
920
primary cell
632
cell line
386
in vitro differentiated cells
10
stem cell
Organ
640
connective tissue
488
adipose tissue
481
pancreas
330
liver
306
heart
295
kidney
179
brain
158
bone element
107
blood vessel
107
vasculature
80
musculature of body
53
limb
47
artery
39
epithelium
35
eye
29
embryo
25
spleen
lung
18
ureter
16
skeleton
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
2757
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1959
GRCh38
1842
hg19
4
hg18
Lab
2512
AMP-T2D consortium
142
Katalin Susztak, Upenn
75
Kyle Gaulton, UCSD
47
KPMP
40
Patrick T. Ellinor, Broad
7
Struan F.A. Grant, CHOP
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
198
inconsistent ontology term
27
inconsistent control
10
audit script error
Audit category:
32
missing controlled_by
Audit category:
23
inconsistent control read length
1
inconsistent assembly
month_released!
May, 2022
October, 2019
organ_slims!
lung
BIOSAMPLE
ASSAY
2835 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
snATAC-seq
small RNA-seq
RRBS
FAIRE-seq
GRO-seq
MeRIP-seq
snDrop-seq
Capture-C
tissue
adipose tissue
382
2
2
3
1
islet of Langerhans
272
50
37
1
6
3
7
1
1
4
liver
146
140
2
1
3
1
1
1
1
kidney
49
23
75
13
64
1
6
1
1
bone element
84
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in vitro differentiated cells
adipocyte
5
67
6
1
1
cardiomyocytes
59
3
embryonic stem cell
7
40
6
1
neural progenitor cell
7
21
10
pancreatic endoderm
4
18
1
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