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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
879
ChIP-seq
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
small RNA-seq
14
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1226
Transcription
879
DNA binding
210
DNA accessibility
38
DNA methylation
14
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
280
August, 2017
226
October, 2019
193
May, 2020
163
August, 2021
163
June, 2019
120
July, 2018
111
May, 2019
82
November, 2017
76
April, 2019
71
July, 2019
63
October, 2018
47
September, 2023
46
December, 2017
40
May, 2021
38
March, 2020
35
May, 2024
28
May, 2022
26
November, 2018
25
February, 2020
20
November, 2019
19
April, 2020
16
February, 2023
15
October, 2017
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
May, 2023
4
November, 2020
3
December, 2019
1
August, 2022
Available data
1820
bam
1702
bigWig
1074
tsv
750
bed narrowPeak
538
bigBed narrowPeak
333
fastq
238
tagAlign
211
bed broadPeak
203
bed bed3+
176
bigBed broadPeak
157
txt
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
1
tagAlign bed3+
Organism
2477
Homo sapiens
Biosample type
2486
tissue
primary cell
535
cell line
341
in vitro differentiated cells
10
stem cell
Organ
536
connective tissue
477
adipose tissue
432
pancreas
338
liver
264
heart
261
brain
223
kidney
146
bone element
114
limb
92
blood vessel
92
vasculature
81
musculature of body
42
nerve
35
artery
28
eye
24
spleen
20
lung
18
ureter
5
gonad
5
ovary
4
skeleton
3
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2400
AMP
47
KPMP
20
T1D
19
LungMap
Genome assembly (visualization)
1674
GRCh38
1610
hg19
Lab
2271
AMP-T2D consortium
67
Katalin Susztak, Upenn
47
KPMP
35
Patrick T. Ellinor, Broad
23
Kyle Gaulton, UCSD
20
Karen Mohlke, UNC
19
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
Bing Ren, UCSD
Audit category:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
25
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
ATAC-seq
biosample_type!
primary cell
lab.title!
Bing Ren, UCSD
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2486 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
adipose tissue
382
2
3
1
islet of Langerhans
291
69
6
1
7
4
1
1
1
4
liver
167
144
1
2
3
1
1
1
1
kidney
49
26
64
13
6
1
1
1
bone element
84
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