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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
ChIP-seq
102
ATAC-seq
53
total RNA-seq
41
WGBS
19
DNase-seq
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
Assay category
122
DNA accessibility
53
Transcription
47
DNA methylation
8
3D chromatin structure
Target of assay
3
control
3
nucleotide modification
Date released
80
May, 2022
50
February, 2023
19
September, 2020
16
May, 2021
14
June, 2019
14
September, 2018
8
July, 2019
8
October, 2019
7
August, 2020
6
November, 2020
5
September, 2017
3
August, 2017
3
October, 2022
2
August, 2021
2
March, 2020
2
November, 2019
Available data
198
bigWig
186
bam
185
fastq
tsv
80
zippedFastqFolder
54
bed narrowPeak
40
bigBed narrowPeak
18
bed bed3+
16
bed broadPeak
16
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
3
cool
2
hdf5
1
tar
Organism
238
Homo sapiens
Biosample type
198
primary cell
29
cell line
12
tissue
Organ
311
pancreas
278
kidney
239
epithelium
101
bone element
91
heart
66
vasculature
65
liver
63
blood vessel
51
eye
49
artery
49
limb
48
musculature of body
42
brain
28
connective tissue
19
lung
18
ureter
16
adipose tissue
16
skeleton
9
blood
9
bodily fluid
5
vein
4
spleen
3
nerve
1
bone marrow
1
pericardium
1
pituitary gland
1
skin of body
1
thymus
Project
146
HPAP
93
AMP
Genome assembly (visualization)
63
hg19
51
GRCh38
Lab
146
Klaus Kaestner, Upenn
87
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
30
inconsistent ontology term
4
audit script error
files.file_type!
tsv
biosample_type!
in vitro differentiated cells
assay_title!
ChIP-seq
BIOSAMPLE
ASSAY
239 results
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ATAC-seq
total RNA-seq
WGBS
DNase-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
primary cell
pancreatic alpha cell
35
42
25
1
pancreatic beta cell
23
11
16
1
pancreatic acinar cell
9
1
endothelial cell of umbilical vein
2
2
1
pancreatic ductal cell
4
+ See 14 more…
cell line
EndoC_BH1
18
1
6
2
1
glomerular visceral epithelial cell
1
tissue
pigmented layer of retina
12
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