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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
121
ATAC-seq
68
total RNA-seq
47
WGBS
20
ChIP-seq
11
snATAC-seq
10
MeRIP-seq
7
Hi-C
2
Capture-C
2
RRBS
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
132
DNA accessibility
70
Transcription
49
DNA methylation
20
DNA binding
7
3D chromatin structure
Target of assay
14
histone
14
histone modification
11
control
8
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
91
February, 2023
80
May, 2022
20
August, 2017
19
September, 2020
17
May, 2021
10
November, 2020
8
January, 2021
8
March, 2020
7
August, 2020
6
February, 2021
4
August, 2021
4
July, 2018
4
October, 2019
3
February, 2020
3
October, 2022
2
July, 2019
2
March, 2019
2
November, 2019
1
August, 2022
1
October, 2017
Available data
bam
708
bigWig
474
tsv
471
fastq
288
bed narrowPeak
116
bigBed narrowPeak
80
zippedFastqFolder
33
bed bed3+
25
bed broadPeak
25
tagAlign
11
bigBed broadPeak
6
bed bedMethyl
6
bedpe bed3+
6
bigBed bedMethyl
6
hic
6
txt
3
cool
1
hdf5
Organism
291
Homo sapiens
Biosample type
152
primary cell
111
tissue
29
cell line
Organ
253
pancreas
208
kidney
207
epithelium
182
heart
93
bone element
91
connective tissue
79
liver
54
eye
51
vasculature
50
blood vessel
49
adipose tissue
43
brain
39
artery
39
musculature of body
20
lung
9
blood
9
bodily fluid
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
152
HPAP
112
AMP
28
T1D
Genome assembly (visualization)
48
GRCh38
21
hg19
Lab
152
Klaus Kaestner, Upenn
100
AMP-T2D consortium
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
292 results
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ATAC-seq
total RNA-seq
WGBS
ChIP-seq
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
RRBS
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
29
42
31
1
pancreatic beta cell
16
11
16
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
19
11
20
7
4
1
1
coronary artery
35
1
pancreas
1
4
1
1
1
pulmonary artery
2
body of pancreas
1
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cell line
EndoC_BH1
18
6
1
2
1
Panc1
1
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