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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
957
total RNA-seq
689
ChIP-seq
169
ATAC-seq
106
DNase-seq
84
RNA microarray
27
WGBS
22
snATAC-seq
21
pCHi-C
18
single cell RNA-seq
15
small RNA-seq
13
Hi-C
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
Assay category
990
Transcription
689
DNA binding
300
DNA accessibility
37
DNA methylation
13
3D chromatin structure
Target of assay
442
histone modification
441
histone
254
broad histone mark
187
narrow histone mark
156
control
93
transcription factor
27
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
284
August, 2017
October, 2019
193
May, 2020
120
July, 2018
115
May, 2019
August, 2021
95
February, 2023
95
June, 2019
82
November, 2017
74
October, 2018
73
July, 2019
66
May, 2022
57
April, 2019
48
December, 2017
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
24
February, 2020
23
October, 2017
19
April, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1627
bam
1523
bigWig
956
tsv
682
bed narrowPeak
427
bigBed narrowPeak
377
fastq
189
tagAlign
141
bed broadPeak
133
bed bed3+
104
bigBed broadPeak
95
txt
24
bed bedMethyl
24
bigBed bedMethyl
9
hic
8
bedpe bed3+
5
bed bed3
1
bedpe
1
csv
Organism
2130
Homo sapiens
Biosample type
2138
tissue
1025
primary cell
586
cell line
344
in vitro differentiated cells
10
stem cell
Organ
544
connective tissue
500
pancreas
486
adipose tissue
355
liver
213
heart
179
brain
kidney
158
bone element
101
blood vessel
101
vasculature
82
musculature of body
53
limb
45
artery
35
eye
25
spleen
20
lung
18
ureter
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
spinal cord
1
stomach
1
urinary bladder
Project
2088
AMP
31
T1D
19
LungMap
Genome assembly (visualization)
1535
GRCh38
1502
hg19
Lab
1977
AMP-T2D consortium
52
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
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:
89
inconsistent ontology term
27
inconsistent control
2
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
August, 2021
October, 2019
organ_slims!
kidney
spinal cord
BIOSAMPLE
ASSAY
2138 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
single cell RNA-seq
small RNA-seq
Hi-C
RRBS
MeRIP-seq
FAIRE-seq
tissue
islet of Langerhans
277
50
55
1
7
6
2
1
4
1
adipose tissue
382
2
2
3
1
liver
166
140
20
2
3
1
1
1
1
1
bone element
84
bone tissue
58
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