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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
397
total RNA-seq
147
ATAC-seq
80
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
2
pCHi-C
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
479
Transcription
DNA binding
168
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
12
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
7
November, 2018
6
July, 2019
5
March, 2019
October, 2017
5
October, 2019
5
September, 2017
4
August, 2021
4
June, 2019
3
August, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
487
bam
457
bigWig
418
tsv
319
fastq
80
zippedFastqFolder
70
bed narrowPeak
32
bigBed narrowPeak
8
bed bed3+
8
bed broadPeak
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
723
Homo sapiens
Biosample type
384
tissue
276
primary cell
64
cell line
Organ
723
pancreas
530
connective tissue
417
adipose tissue
395
epithelium
302
kidney
259
heart
239
liver
159
bone element
134
vasculature
131
blood vessel
107
artery
67
brain
57
musculature of body
56
eye
56
limb
20
lung
18
ureter
16
skeleton
15
embryo
9
blood
9
bodily fluid
8
nerve
5
vein
4
spleen
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
542
AMP
152
HPAP
30
T1D
Genome assembly (visualization)
490
hg19
473
GRCh38
Lab
504
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
Audit category:
66
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
assay_slims!!
DNA binding
month_released!
October, 2017
BIOSAMPLE
ASSAY
724 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
pCHi-C
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
tissue
islet of Langerhans
278
57
6
7
4
3
1
1
1
pancreas
2
2
4
1
2
1
1
1
body of pancreas
3
2
4
2
esophagus
1
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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