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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
302
total RNA-seq
90
ATAC-seq
68
ChIP-seq
11
snATAC-seq
10
DNase-seq
6
single cell RNA-seq
5
pCHi-C
4
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
Assay category
310
Transcription
113
DNA accessibility
68
DNA binding
6
DNA methylation
4
3D chromatin structure
Target of assay
45
histone
45
histone modification
23
narrow histone mark
22
broad histone mark
18
control
7
transcription factor
2
RNA binding protein
2
nucleotide modification
Date released
147
August, 2017
120
July, 2018
October, 2018
49
February, 2023
39
November, 2019
37
May, 2021
24
May, 2022
24
October, 2019
9
March, 2020
8
January, 2021
7
June, 2019
7
November, 2018
6
April, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
November, 2020
2
August, 2021
2
February, 2020
2
May, 2019
1
August, 2022
Available data
381
bam
336
bigWig
280
tsv
178
fastq
113
bed narrowPeak
30
bed bed3+
25
bigBed narrowPeak
23
bed broadPeak
16
tagAlign
9
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
1
bedpe
Organism
503
Homo sapiens
Biosample type
510
tissue
349
primary cell
92
cell line
3
in vitro differentiated cells
Organ
524
connective tissue
465
adipose tissue
454
pancreas
361
liver
313
heart
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
480
AMP
30
T1D
Genome assembly (visualization)
403
hg19
349
GRCh38
Lab
447
AMP-T2D consortium
51
Kyle Gaulton, 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:
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
month_released!
October, 2018
BIOSAMPLE
ASSAY
510 results
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total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
DNase-seq
single cell RNA-seq
pCHi-C
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
tissue
islet of Langerhans
292
59
52
7
1
6
4
3
4
1
1
pancreas
2
14
4
2
1
1
2
1
1
retina
3
15
3
body of pancreas
3
4
2
4
2
2
pigmented layer of retina
2
12
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