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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
total RNA-seq
ChIP-seq
152
ATAC-seq
74
single cell RNA-seq
51
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
8
DNase-seq
2
Capture-C
2
FAIRE-seq
2
RRBS
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
477
Transcription
173
DNA accessibility
53
DNA methylation
9
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
157
July, 2018
104
May, 2022
94
August, 2017
57
May, 2021
56
February, 2023
42
November, 2019
40
September, 2018
39
April, 2018
32
February, 2021
19
September, 2020
11
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
7
November, 2018
5
March, 2019
5
October, 2017
5
October, 2019
5
September, 2017
4
August, 2021
4
July, 2019
4
June, 2019
3
August, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
489
bam
460
bigWig
415
tsv
324
fastq
80
zippedFastqFolder
74
bed narrowPeak
32
bigBed narrowPeak
9
bed broadPeak
8
bed bed3+
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
725
Homo sapiens
Biosample type
386
tissue
276
primary cell
64
cell line
Organ
726
pancreas
528
connective tissue
415
adipose tissue
395
epithelium
301
kidney
258
heart
236
liver
159
bone element
134
vasculature
131
blood vessel
107
artery
64
brain
56
eye
56
limb
55
musculature of body
20
lung
18
ureter
16
skeleton
15
embryo
9
blood
9
bodily fluid
8
nerve
5
spleen
5
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
544
AMP
152
HPAP
30
T1D
Genome assembly (visualization)
493
hg19
476
GRCh38
Lab
505
AMP-T2D consortium
152
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
66
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_title!
small RNA-seq
ChIP-seq
BIOSAMPLE
ASSAY
726 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
DNase-seq
Capture-C
FAIRE-seq
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
58
7
4
3
1
1
1
pancreas
2
2
4
1
2
1
1
1
body of pancreas
3
4
2
4
primary cell
pancreatic alpha cell
52
35
12
31
1
pancreatic beta cell
21
23
12
16
1
pancreatic acinar cell
4
9
12
1
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
19
6
1
2
1
Panc1
1
1
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