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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
530
ChIP-seq
193
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
16
Hi-C
small RNA-seq
11
WGBS
4
MeRIP-seq
3
snDrop-seq
2
RRBS
1
DNase-seq
Assay category
1211
Transcription
530
DNA binding
222
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
316
histone modification
315
histone
216
narrow histone mark
187
control
99
broad histone mark
29
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
545
February, 2021
257
August, 2017
195
October, 2019
193
May, 2020
165
August, 2021
120
July, 2018
95
February, 2023
66
May, 2022
47
September, 2023
45
July, 2019
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
29
October, 2018
25
February, 2020
25
November, 2017
22
May, 2019
19
April, 2020
17
October, 2017
16
April, 2019
15
May, 2023
12
December, 2017
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
4
December, 2018
4
November, 2020
3
December, 2019
3
November, 2018
2
January, 2018
1
August, 2022
1
January, 2019
Available data
1891
bam
1756
bigWig
1060
tsv
984
bed narrowPeak
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
xls
25
bed bedMethyl
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2108
Homo sapiens
Biosample type
2111
tissue
967
primary cell
377
in vitro differentiated cells
306
cell line
10
stem cell
Organ
533
connective tissue
474
adipose tissue
435
pancreas
308
liver
217
heart
158
bone element
146
kidney
144
brain
70
blood vessel
70
vasculature
53
eye
48
artery
40
musculature of body
37
limb
20
lung
17
nerve
16
skeleton
15
epithelium
10
spleen
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2014
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1237
hg19
1208
GRCh38
Lab
1823
AMP-T2D consortium
78
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
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:
90
inconsistent ontology term
9
audit script error
Audit category:
23
missing controlled_by
assay_title!
small RNA-seq
files.file_type!
bigBed bedMethyl
bigBed narrowPeak
xls
BIOSAMPLE
ASSAY
2111 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
WGBS
MeRIP-seq
snDrop-seq
RRBS
DNase-seq
tissue
islet of Langerhans
292
71
68
6
7
4
3
4
adipose tissue
382
1
2
1
1
liver
167
107
20
1
1
1
3
kidney
49
9
11
64
6
1
bone element
84
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