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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
316
total RNA-seq
47
ChIP-seq
36
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
6
single cell RNA-seq
5
Hi-C
4
WGBS
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
324
Transcription
47
DNA accessibility
47
DNA binding
6
DNA methylation
5
3D chromatin structure
Target of assay
35
control
11
histone
11
histone modification
6
narrow histone mark
6
transcription factor
5
broad histone mark
5
nucleotide modification
1
RNA binding protein
Date released
120
July, 2018
115
August, 2017
58
May, 2021
26
February, 2021
24
November, 2019
19
February, 2023
11
March, 2020
11
October, 2018
October, 2019
10
November, 2020
8
January, 2021
6
April, 2018
6
July, 2019
6
May, 2022
6
September, 2017
5
March, 2019
4
August, 2021
4
November, 2018
1
August, 2022
1
February, 2020
1
May, 2019
1
October, 2017
Available data
481
bam
423
bigWig
309
tsv
213
fastq
bed narrowPeak
62
bigBed narrowPeak
27
bed bed3+
20
bed broadPeak
19
tagAlign
6
bed bedMethyl
6
bigBed bedMethyl
6
bigBed broadPeak
6
txt
4
bedpe bed3+
4
hic
1
bedpe
Organism
441
Homo sapiens
Biosample type
379
tissue
primary cell
63
cell line
1
in vitro differentiated cells
Organ
583
connective tissue
475
adipose tissue
443
pancreas
341
liver
192
heart
150
bone element
148
kidney
82
blood vessel
82
vasculature
72
epithelium
62
brain
60
artery
31
musculature of body
23
embryo
20
lung
11
spleen
9
limb
8
skeleton
7
blood
7
bodily fluid
5
eye
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
nerve
1
ovary
1
pericardium
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
413
AMP
30
T1D
Genome assembly (visualization)
328
hg19
322
GRCh38
Lab
392
AMP-T2D consortium
33
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:
62
inconsistent ontology term
1
audit script error
Audit category:
9
missing controlled_by
month_released!
October, 2019
files.file_type!
bed narrowPeak
biosample_type!
primary cell
BIOSAMPLE
ASSAY
443 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
MeRIP-seq
single cell RNA-seq
Hi-C
WGBS
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
278
30
18
7
4
6
3
1
body of pancreas
3
9
2
2
pancreas
2
3
4
1
2
1
1
endocrine pancreas
2
cell line
EndoC_BH1
33
2
18
6
1
2
1
in vitro differentiated cells
pancreatic PP cell
1
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