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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
87
ATAC-seq
67
total RNA-seq
47
WGBS
20
ChIP-seq
10
MeRIP-seq
10
snATAC-seq
6
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
97
DNA accessibility
67
Transcription
49
DNA methylation
20
DNA binding
6
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
80
May, 2022
56
February, 2023
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
March, 2019
4
October, 2019
2
July, 2019
2
November, 2019
1
February, 2020
1
October, 2017
Available data
bam
614
bigWig
463
fastq
417
tsv
206
bed narrowPeak
85
bigBed narrowPeak
80
zippedFastqFolder
27
bed bed3+
21
bed broadPeak
19
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
252
Homo sapiens
Biosample type
149
primary cell
75
tissue
29
cell line
Organ
253
pancreas
203
kidney
202
epithelium
177
heart
109
liver
93
bone element
90
connective tissue
54
eye
50
vasculature
49
blood vessel
48
adipose tissue
43
brain
39
artery
37
musculature of body
20
lung
8
blood
8
bodily fluid
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
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
1
vein
Project
149
HPAP
76
AMP
28
T1D
Genome assembly (visualization)
20
hg19
14
GRCh38
Lab
149
Klaus Kaestner, Upenn
60
AMP-T2D consortium
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
inconsistent ontology term
audit script error
Audit category:
1
inconsistent assembly
audit.ERROR.category!
audit script error
files.file_type!
bam
month_released!
January, 2018
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
253 results
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Clear Filters
ATAC-seq
total RNA-seq
WGBS
ChIP-seq
MeRIP-seq
snATAC-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
29
42
31
pancreatic beta cell
16
11
16
pancreatic acinar cell
4
tissue
islet of Langerhans
20
12
20
4
6
3
1
pancreas
1
4
1
1
1
body of pancreas
1
cell line
EndoC_BH1
18
6
1
2
1
Panc1
1
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