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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
117
ChIP-seq
62
ATAC-seq
11
snATAC-seq
4
Hi-C
4
MeRIP-seq
4
WGBS
3
DNase-seq
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
291
Transcription
117
DNA binding
78
DNA accessibility
6
DNA methylation
4
3D chromatin structure
Target of assay
73
histone
73
histone modification
41
broad histone mark
32
narrow histone mark
29
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
147
August, 2017
120
July, 2018
51
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
June, 2019
4
November, 2020
3
October, 2019
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
425
bam
369
bigWig
275
tsv
213
fastq
119
bed narrowPeak
58
bigBed narrowPeak
23
bed bed3+
16
bed broadPeak
16
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
2
bigBed broadPeak
1
bedpe
Organism
494
Homo sapiens
Biosample type
501
tissue
346
primary cell
92
cell line
3
in vitro differentiated cells
Organ
546
connective tissue
501
pancreas
487
adipose tissue
361
liver
286
heart
239
brain
231
kidney
154
bone element
130
blood vessel
130
vasculature
90
limb
71
artery
53
eye
50
musculature of body
43
nerve
25
spleen
20
lung
15
epithelium
12
skeleton
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
471
AMP
30
T1D
Genome assembly (visualization)
411
hg19
382
GRCh38
Lab
438
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:
5
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bed3
month_released!
June, 2019
BIOSAMPLE
ASSAY
501 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
Hi-C
MeRIP-seq
WGBS
DNase-seq
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
284
50
58
7
3
4
1
1
1
body of pancreas
3
35
4
2
2
2
pancreas
2
16
4
1
2
1
1
1
endocrine pancreas
16
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