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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
73
total RNA-seq
71
ATAC-seq
55
ChIP-seq
47
WGBS
11
snATAC-seq
10
MeRIP-seq
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
Hi-C
1
pCHi-C
Assay category
82
DNA accessibility
73
Transcription
55
DNA binding
47
DNA methylation
1
3D chromatin structure
Target of assay
51
control
9
histone
9
histone modification
5
broad histone mark
5
nucleotide modification
4
narrow histone mark
Date released
86
May, 2022
56
February, 2023
29
August, 2017
18
May, 2021
16
September, 2020
11
October, 2018
10
November, 2020
10
October, 2019
8
January, 2021
6
February, 2021
4
August, 2021
4
July, 2018
4
September, 2017
3
March, 2020
2
March, 2019
2
November, 2019
1
August, 2022
1
February, 2020
1
May, 2019
Available data
108
fastq
80
zippedFastqFolder
54
bam
bigWig
9
tsv
6
txt
5
tagAlign
4
bed bedMethyl
4
bigBed bedMethyl
3
bed broadPeak
2
bed bed3+
2
bed narrowPeak
2
bigBed broadPeak
2
bigBed narrowPeak
1
bedpe bed3+
Organism
270
Homo sapiens
Biosample type
151
primary cell
86
tissue
34
cell line
1
in vitro differentiated cells
Organ
272
pancreas
218
kidney
197
epithelium
161
liver
156
heart
92
connective tissue
89
bone element
69
blood vessel
69
vasculature
63
adipose tissue
59
brain
48
artery
27
eye
25
limb
22
musculature of body
20
lung
14
blood
14
bodily fluid
12
nerve
9
spleen
7
embryo
5
gonad
5
ovary
5
vein
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
139
HPAP
105
AMP
28
T1D
Genome assembly (visualization)
hg19
24
GRCh38
Lab
139
Klaus Kaestner, Upenn
86
AMP-T2D consortium
33
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
26
inconsistent ontology term
1
audit script error
files.file_type!
bigWig
assembly!
hg19
BIOSAMPLE
ASSAY
272 results
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total RNA-seq
ATAC-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
Hi-C
pCHi-C
primary cell
pancreatic alpha cell
42
22
6
31
pancreatic beta cell
11
13
6
16
pancreatic acinar cell
4
tissue
islet of Langerhans
18
16
19
7
4
1
body of pancreas
1
9
pancreas
1
3
4
1
endocrine pancreas
2
cell line
EndoC_BH1
16
2
6
2
1
Panc1
7
in vitro differentiated cells
pancreatic PP cell
1
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