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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
64
ATAC-seq
61
ChIP-seq
61
total RNA-seq
47
WGBS
10
MeRIP-seq
8
Hi-C
Capture-C
2
FAIRE-seq
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
1
snATAC-seq
Assay category
67
DNA accessibility
61
DNA binding
61
Transcription
49
DNA methylation
8
3D chromatin structure
Target of assay
51
control
15
histone
15
histone modification
9
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
80
May, 2022
38
February, 2023
36
August, 2017
17
May, 2021
16
September, 2020
11
October, 2018
10
November, 2020
10
October, 2019
8
March, 2020
6
February, 2021
4
July, 2018
4
November, 2019
4
September, 2017
3
March, 2019
3
October, 2022
2
August, 2021
2
July, 2019
1
August, 2022
1
February, 2020
1
May, 2019
1
November, 2018
Available data
90
fastq
80
zippedFastqFolder
44
bam
12
bigWig
11
tagAlign
11
tsv
8
bed narrowPeak
7
bed broadPeak
7
bedpe bed3+
7
hic
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
2
bigBed narrowPeak
1
bedpe
Organism
256
Homo sapiens
Biosample type
154
primary cell
68
tissue
35
cell line
1
in vitro differentiated cells
Organ
260
liver
258
pancreas
228
epithelium
149
kidney
127
heart
115
connective tissue
92
bone element
69
brain
67
adipose tissue
55
eye
45
vasculature
43
blood vessel
43
musculature of body
26
limb
20
lung
13
artery
12
nerve
10
vein
9
spleen
8
embryo
8
skeleton
7
blood
7
bodily fluid
5
gonad
5
ovary
2
intestine
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
142
HPAP
114
AMP
2
T1D
Genome assembly (visualization)
640
hg19
GRCh38
Lab
142
Klaus Kaestner, Upenn
101
AMP-T2D consortium
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
27
inconsistent ontology term
4
audit script error
lab.title!
Kyle Gaulton, UCSD
assay_title!
Capture-C
assembly!
GRCh38
BIOSAMPLE
ASSAY
258 results
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ATAC-seq
ChIP-seq
total RNA-seq
WGBS
MeRIP-seq
Hi-C
FAIRE-seq
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
snATAC-seq
primary cell
pancreatic alpha cell
22
6
42
31
1
pancreatic beta cell
13
6
11
16
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
7
25
7
4
3
1
1
1
body of pancreas
9
1
pancreas
3
1
1
1
1
endocrine pancreas
2
cell line
EndoC_BH1
18
2
6
1
1
Panc1
7
in vitro differentiated cells
pancreatic PP cell
1
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