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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
76
ATAC-seq
41
WGBS
20
ChIP-seq
14
total RNA-seq
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
87
DNA accessibility
43
DNA methylation
20
DNA binding
14
Transcription
9
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
20
August, 2017
19
February, 2023
17
May, 2021
10
November, 2020
8
January, 2021
8
March, 2020
4
August, 2021
4
July, 2018
4
March, 2019
4
October, 2019
3
October, 2022
2
July, 2019
2
November, 2019
1
August, 2022
1
February, 2020
Available data
bam
623
bigWig
fastq
417
tsv
214
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
186
Homo sapiens
Biosample type
83
primary cell
75
tissue
29
cell line
Organ
210
kidney
187
pancreas
182
heart
138
epithelium
106
liver
93
bone element
89
connective tissue
54
eye
51
vasculature
50
blood vessel
47
adipose tissue
42
brain
39
artery
37
musculature of body
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
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
pituitary gland
1
skin of body
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
83
HPAP
76
AMP
28
T1D
Genome assembly (visualization)
22
hg19
3
GRCh38
Lab
83
Klaus Kaestner, Upenn
61
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
Audit category:
27
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
fastq
month_released!
April, 2020
organ_slims!
small intestine
BIOSAMPLE
ASSAY
187 results
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Clear Filters
ATAC-seq
WGBS
ChIP-seq
total RNA-seq
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
22
25
1
pancreatic beta cell
13
16
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
19
20
12
7
4
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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