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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
93
ATAC-seq
73
total RNA-seq
61
ChIP-seq
41
WGBS
11
snATAC-seq
10
MeRIP-seq
8
Hi-C
2
Capture-C
2
FAIRE-seq
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
106
DNA accessibility
73
Transcription
61
DNA binding
43
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
104
May, 2022
56
February, 2023
36
August, 2017
18
May, 2021
16
September, 2020
11
October, 2018
10
November, 2020
10
October, 2019
8
January, 2021
8
March, 2020
February, 2021
4
August, 2021
4
July, 2018
4
November, 2019
4
September, 2017
3
March, 2019
3
October, 2022
2
July, 2019
1
August, 2022
1
February, 2020
1
May, 2019
1
November, 2018
Available data
108
fastq
80
zippedFastqFolder
68
bam
26
bed narrowPeak
12
bigWig
11
tagAlign
7
bed broadPeak
7
bedpe bed3+
7
hic
6
txt
5
tsv
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
2
bigBed narrowPeak
1
bedpe
Organism
303
Homo sapiens
Biosample type
148
primary cell
119
tissue
37
cell line
1
in vitro differentiated cells
Organ
305
pancreas
258
liver
224
epithelium
141
kidney
125
heart
108
connective tissue
68
brain
67
adipose tissue
55
eye
43
musculature of body
43
vasculature
41
blood vessel
26
limb
20
lung
15
blood
15
bodily fluid
12
nerve
11
artery
10
vein
9
spleen
8
embryo
5
bone element
5
gonad
5
ovary
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
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
urinary bladder
Project
141
AMP
136
HPAP
28
T1D
Genome assembly (visualization)
632
hg19
GRCh38
Lab
136
Klaus Kaestner, Upenn
103
AMP-T2D consortium
51
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:
29
inconsistent ontology term
4
audit script error
files.file_type!
bed bed3
month_released!
February, 2021
assembly!
GRCh38
BIOSAMPLE
ASSAY
305 results
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Clear Filters
ATAC-seq
total RNA-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
FAIRE-seq
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
22
42
6
25
1
pancreatic beta cell
13
11
6
16
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
36
18
25
7
4
3
1
1
pancreas
1
3
4
1
1
1
1
body of pancreas
1
9
endocrine pancreas
2
cell line
EndoC_BH1
18
2
6
1
2
1
Panc1
7
in vitro differentiated cells
pancreatic PP cell
1
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