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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
969
total RNA-seq
600
ChIP-seq
178
DNase-seq
167
ATAC-seq
86
RNA microarray
74
single cell RNA-seq
27
WGBS
23
pCHi-C
16
small RNA-seq
14
Hi-C
12
snATAC-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1059
Transcription
600
DNA binding
361
DNA accessibility
38
DNA methylation
14
3D chromatin structure
Target of assay
624
histone modification
623
histone
320
narrow histone mark
broad histone mark
187
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
August, 2021
211
August, 2017
199
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
77
February, 2023
77
July, 2019
59
May, 2019
55
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
42
May, 2022
40
November, 2017
40
November, 2019
39
March, 2020
38
May, 2021
26
November, 2018
25
February, 2020
20
May, 2024
19
April, 2020
15
May, 2023
13
October, 2017
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
3
January, 2019
2
January, 2018
1
August, 2022
Available data
1661
bam
1519
bigWig
976
tsv
649
bed narrowPeak
357
bigBed narrowPeak
308
fastq
199
bed bed3+
193
bed broadPeak
176
bigBed broadPeak
162
tagAlign
94
txt
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2184
Homo sapiens
Biosample type
2188
tissue
788
primary cell
595
cell line
266
in vitro differentiated cells
9
stem cell
Organ
526
connective tissue
467
adipose tissue
411
pancreas
336
liver
195
brain
164
heart
161
kidney
158
bone element
91
blood vessel
91
vasculature
88
limb
66
musculature of body
57
artery
56
eye
27
nerve
21
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2118
AMP
47
KPMP
19
LungMap
4
T1D
Genome assembly (visualization)
1553
GRCh38
1538
hg19
Lab
2038
AMP-T2D consortium
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
20
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
14
Katalin Susztak, Upenn
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
lab.title!
Kyle Gaulton, UCSD
month_released!
August, 2021
organ_slims!
ovary
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2188 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
RNA microarray
single cell RNA-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
snATAC-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
280
53
1
39
6
4
2
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
123
2
20
1
3
1
1
1
1
kidney
17
13
11
56
1
1
bone element
84
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