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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
283
total RNA-seq
112
ChIP-seq
62
ATAC-seq
11
snATAC-seq
7
DNase-seq
6
single cell RNA-seq
4
WGBS
3
Hi-C
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
291
Transcription
112
DNA binding
82
DNA accessibility
6
DNA methylation
3
3D chromatin structure
Target of assay
68
histone
68
histone modification
38
broad histone mark
30
narrow histone mark
27
control
17
transcription factor
8
RNA binding protein
Date released
143
August, 2017
120
July, 2018
50
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
October, 2017
4
June, 2019
4
March, 2019
3
October, 2019
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
424
bam
368
bigWig
275
tsv
208
fastq
118
bed narrowPeak
57
bigBed narrowPeak
27
bed bed3+
20
bed broadPeak
16
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
6
bigBed broadPeak
6
txt
3
bedpe bed3+
3
hic
bedpe
Organism
488
Homo sapiens
Biosample type
495
tissue
342
primary cell
86
cell line
3
in vitro differentiated cells
Organ
547
connective tissue
495
pancreas
488
adipose tissue
360
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
465
AMP
30
T1D
Genome assembly (visualization)
407
hg19
381
GRCh38
Lab
437
AMP-T2D consortium
51
Kyle Gaulton, UCSD
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
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:
inconsistent control read length
1
inconsistent assembly
audit.WARNING.category!
inconsistent control read length
files.file_type!
bedpe
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
BIOSAMPLE
ASSAY
495 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
DNase-seq
single cell RNA-seq
WGBS
Hi-C
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
278
50
58
7
1
6
2
1
1
body of pancreas
3
34
4
4
2
2
pancreas
2
12
4
2
2
1
1
1
1
endocrine pancreas
16
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