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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
962
total RNA-seq
658
ChIP-seq
182
ATAC-seq
151
DNase-seq
124
single cell RNA-seq
87
RNA microarray
27
WGBS
22
pCHi-C
13
Hi-C
12
small RNA-seq
10
RRBS
8
snATAC-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1098
Transcription
658
DNA binding
344
DNA accessibility
37
DNA methylation
13
3D chromatin structure
Target of assay
409
histone modification
408
histone
213
broad histone mark
195
narrow histone mark
160
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
284
August, 2017
227
August, 2021
193
May, 2020
156
October, 2019
138
June, 2019
120
July, 2018
87
May, 2019
80
April, 2019
76
February, 2023
74
October, 2018
66
July, 2019
48
December, 2017
November, 2019
38
March, 2020
38
May, 2021
24
November, 2018
15
May, 2023
13
February, 2020
7
December, 2018
7
January, 2019
6
April, 2018
6
October, 2017
6
September, 2017
3
December, 2019
2
January, 2018
2
May, 2022
1
August, 2022
Available data
1617
bam
1490
bigWig
1033
tsv
694
bed narrowPeak
445
bigBed narrowPeak
339
fastq
178
bed bed3+
175
bed broadPeak
151
txt
149
bigBed broadPeak
120
tagAlign
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
9
hic
8
bedpe bed3+
6
csv
4
bed bed3
Organism
2254
Homo sapiens
Biosample type
2262
tissue
599
cell line
503
primary cell
335
in vitro differentiated cells
8
stem cell
Organ
546
connective tissue
487
adipose tissue
403
pancreas
321
liver
273
heart
brain
252
kidney
158
bone element
133
blood vessel
133
vasculature
122
limb
82
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
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2258
AMP
4
T1D
Genome assembly (visualization)
1574
GRCh38
1530
hg19
Lab
2120
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:
87
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
November, 2019
organ_slims!
brain
BIOSAMPLE
ASSAY
2262 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
snATAC-seq
FAIRE-seq
snDrop-seq
tissue
adipose tissue
382
2
3
3
1
islet of Langerhans
261
71
14
1
6
4
1
1
1
liver
147
145
2
1
3
1
1
1
1
kidney
49
27
75
13
17
1
1
6
1
bone element
84
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