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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
950
total RNA-seq
838
ChIP-seq
146
DNase-seq
130
ATAC-seq
106
single cell RNA-seq
87
RNA microarray
26
WGBS
23
pCHi-C
15
small RNA-seq
7
Hi-C
6
RRBS
4
FAIRE-seq
3
snDrop-seq
1
snATAC-seq
Assay category
1071
Transcription
838
DNA binding
281
DNA accessibility
32
DNA methylation
7
3D chromatin structure
Target of assay
568
histone modification
567
histone
300
narrow histone mark
267
broad histone mark
181
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
258
August, 2017
242
October, 2019
193
May, 2020
131
June, 2019
120
July, 2018
108
May, 2019
99
August, 2021
82
November, 2017
80
April, 2019
77
February, 2023
74
October, 2018
69
July, 2019
48
December, 2017
40
November, 2019
38
May, 2021
35
March, 2020
26
November, 2018
23
February, 2020
22
October, 2017
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
3
December, 2019
1
August, 2022
1
January, 2018
1
May, 2023
Available data
1838
bam
1654
bigWig
1068
tsv
791
bed narrowPeak
523
bigBed narrowPeak
349
fastq
223
tagAlign
172
bed bed3+
166
bed broadPeak
144
bigBed broadPeak
93
txt
21
bed bedMethyl
21
bigBed bedMethyl
7
bedpe bed3+
7
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2334
Homo sapiens
Biosample type
2342
tissue
615
cell line
509
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
547
connective tissue
488
adipose tissue
442
pancreas
321
liver
273
heart
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
110
kidney
musculature of body
73
artery
56
eye
43
nerve
25
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2338
AMP
4
T1D
Genome assembly (visualization)
1699
GRCh38
1650
hg19
Lab
2342
AMP-T2D consortium
142
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
27
inconsistent control
8
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
pericardium
musculature of body
BIOSAMPLE
ASSAY
2342 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
snDrop-seq
snATAC-seq
tissue
islet of Langerhans
286
71
1
34
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
1
3
1
1
1
1
bone element
84
heart left ventricle
3
35
3
2
18
4
1
1
1
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