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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
94
ATAC-seq
69
ChIP-seq
41
WGBS
12
total RNA-seq
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
5
DNase-seq
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
110
DNA accessibility
69
DNA binding
43
DNA methylation
12
Transcription
9
3D chromatin structure
Target of assay
51
histone
51
histone modification
26
broad histone mark
25
narrow histone mark
23
control
5
nucleotide modification
transcription factor
1
RNA binding protein
Date released
80
May, 2022
34
November, 2019
20
August, 2017
20
May, 2021
19
February, 2023
18
October, 2019
16
October, 2018
10
November, 2020
8
January, 2021
8
March, 2020
4
July, 2018
4
June, 2019
4
March, 2019
3
August, 2021
3
October, 2022
2
July, 2019
2
May, 2019
1
August, 2022
Available data
670
bam
604
bigWig
fastq
tsv
201
bed narrowPeak
81
bigBed narrowPeak
80
zippedFastqFolder
22
bed bed3+
21
bed broadPeak
18
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
255
Homo sapiens
Biosample type
114
tissue
83
primary cell
57
cell line
2
in vitro differentiated cells
Organ
320
kidney
256
pancreas
239
brain
208
heart
206
epithelium
155
vasculature
152
blood vessel
146
liver
115
limb
107
connective tissue
101
bone element
85
musculature of body
78
artery
55
eye
46
adipose tissue
38
nerve
22
vein
19
lung
18
ureter
16
skeleton
9
blood
9
bodily fluid
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
141
AMP
83
HPAP
32
T1D
Genome assembly (visualization)
79
hg19
64
GRCh38
Lab
131
AMP-T2D consortium
83
Klaus Kaestner, Upenn
27
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:
41
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
target.investigated_as!
transcription factor
files.file_type!
tsv
fastq
BIOSAMPLE
ASSAY
256 results
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ATAC-seq
ChIP-seq
WGBS
total RNA-seq
snATAC-seq
MeRIP-seq
Hi-C
DNase-seq
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
tissue
islet of Langerhans
37
22
11
7
4
3
1
endocrine pancreas
16
pancreas
1
4
1
2
1
body of pancreas
2
2
primary cell
pancreatic alpha cell
22
25
1
pancreatic beta cell
13
16
1
pancreatic acinar cell
4
1
cell line
EndoC_BH1
18
14
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
2
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