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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
949
total RNA-seq
584
ChIP-seq
178
DNase-seq
131
ATAC-seq
113
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
16
small RNA-seq
13
Hi-C
10
RRBS
4
FAIRE-seq
3
snDrop-seq
2
snATAC-seq
Assay category
1078
Transcription
584
DNA binding
315
DNA accessibility
37
DNA methylation
13
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
broad histone mark
185
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
211
August, 2017
203
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
99
August, 2021
77
February, 2023
76
July, 2019
59
May, 2019
55
October, 2018
45
December, 2017
43
April, 2019
40
March, 2020
40
November, 2017
40
November, 2019
38
May, 2021
26
November, 2018
25
February, 2020
12
October, 2017
7
December, 2018
6
April, 2018
6
September, 2017
3
December, 2019
3
January, 2019
2
January, 2018
2
May, 2022
1
August, 2022
1
May, 2023
Available data
1660
bam
1478
bigWig
1075
tsv
609
bed narrowPeak
357
bigBed narrowPeak
306
fastq
199
bed bed3+
191
bed broadPeak
176
bigBed broadPeak
162
tagAlign
94
txt
24
bed bedMethyl
24
bigBed bedMethyl
9
bedpe bed3+
9
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2137
Homo sapiens
Biosample type
2141
tissue
597
cell line
465
primary cell
294
in vitro differentiated cells
7
stem cell
Organ
527
connective tissue
468
adipose tissue
401
pancreas
296
liver
236
heart
195
brain
158
bone element
100
kidney
97
blood vessel
97
vasculature
88
limb
66
musculature of body
59
artery
56
eye
27
nerve
21
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
2137
AMP
4
T1D
Genome assembly (visualization)
1519
GRCh38
1513
hg19
Lab
2141
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
20
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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
organ_slims!
pericardium
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2141 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
adipose tissue
382
2
3
3
1
islet of Langerhans
280
57
1
34
6
4
1
1
1
1
liver
147
123
2
1
3
1
1
1
1
bone element
84
bone tissue
58
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