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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
381
total RNA-seq
227
ChIP-seq
127
ATAC-seq
13
DNase-seq
11
snATAC-seq
10
MeRIP-seq
7
Hi-C
6
WGBS
6
single cell RNA-seq
2
Capture-C
2
FAIRE-seq
2
RRBS
2
pCHi-C
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
389
Transcription
227
DNA binding
153
DNA accessibility
8
DNA methylation
7
3D chromatin structure
Target of assay
147
histone
147
histone modification
87
broad histone mark
60
narrow histone mark
59
control
26
transcription factor
12
RNA binding protein
5
nucleotide modification
Date released
147
August, 2017
120
July, 2018
92
February, 2021
61
May, 2021
55
November, 2019
54
February, 2023
52
May, 2019
51
October, 2018
44
October, 2019
24
May, 2022
17
March, 2020
13
July, 2019
10
August, 2021
10
November, 2020
8
January, 2021
7
June, 2019
7
November, 2018
6
April, 2018
6
September, 2017
5
March, 2019
5
October, 2017
4
February, 2020
1
August, 2022
Available data
648
bam
557
bigWig
375
tsv
258
bed narrowPeak
213
fastq
131
bigBed narrowPeak
34
bed bed3+
26
bed broadPeak
25
tagAlign
12
bigBed broadPeak
7
bed bedMethyl
7
bigBed bedMethyl
6
txt
5
bedpe bed3+
5
hic
1
bedpe
1
hdf5
Organism
791
Homo sapiens
Biosample type
638
tissue
primary cell
158
cell line
3
in vitro differentiated cells
Organ
777
liver
645
connective tissue
600
pancreas
489
adipose tissue
340
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
118
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
37
embryo
25
spleen
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
765
AMP
34
T1D
Genome assembly (visualization)
612
GRCh38
607
hg19
Lab
730
AMP-T2D consortium
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
76
inconsistent ontology term
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
biosample_type!
primary cell
BIOSAMPLE
ASSAY
799 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
snATAC-seq
MeRIP-seq
Hi-C
WGBS
single cell RNA-seq
Capture-C
FAIRE-seq
RRBS
pCHi-C
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
tissue
islet of Langerhans
284
50
58
1
7
4
3
1
1
body of pancreas
3
35
4
4
2
2
coronary artery
1
5
36
2
pancreas
2
16
2
4
1
2
1
1
1
tibial artery
1
23
1
2
+ See 5 more…
cell line
EndoC_BH1
33
15
19
6
1
2
1
smooth muscle cell of the coronary artery
52
6
8
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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