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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
289
total RNA-seq
66
ChIP-seq
62
ATAC-seq
11
snATAC-seq
7
DNase-seq
4
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
291
Transcription
82
DNA accessibility
66
DNA binding
6
DNA methylation
4
3D chromatin structure
Target of assay
43
histone
43
histone modification
22
broad histone mark
21
narrow histone mark
18
control
7
transcription factor
2
RNA binding protein
2
nucleotide modification
Date released
147
August, 2017
120
July, 2018
October, 2018
39
November, 2019
37
May, 2021
24
May, 2022
18
February, 2023
9
March, 2020
8
January, 2021
7
November, 2018
6
April, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
June, 2019
4
November, 2020
3
October, 2019
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
378
bam
333
bigWig
275
tsv
178
fastq
83
bed narrowPeak
27
bed bed3+
22
bigBed narrowPeak
20
bed broadPeak
16
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
6
bigBed broadPeak
6
txt
3
bedpe bed3+
3
hic
1
bedpe
Organism
447
Homo sapiens
Biosample type
454
tissue
344
primary cell
92
cell line
3
in vitro differentiated cells
Organ
524
connective tissue
465
adipose tissue
454
pancreas
361
liver
299
kidney
273
heart
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
424
AMP
30
T1D
Genome assembly (visualization)
373
hg19
346
GRCh38
Lab
391
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
454 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
DNase-seq
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
284
50
58
7
1
3
4
1
1
pancreas
2
14
4
2
1
2
1
1
1
body of pancreas
3
2
4
4
2
2
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