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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
289
total RNA-seq
62
ATAC-seq
50
ChIP-seq
11
snATAC-seq
8
DNase-seq
8
single cell RNA-seq
5
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
299
Transcription
83
DNA accessibility
50
DNA binding
6
DNA methylation
5
3D chromatin structure
Target of assay
103
histone
histone modification
56
broad histone mark
47
narrow histone mark
35
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
126
July, 2018
107
August, 2017
39
November, 2019
37
May, 2021
24
May, 2022
21
October, 2018
18
February, 2023
11
October, 2019
8
April, 2018
8
January, 2021
7
March, 2020
7
November, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
June, 2019
4
November, 2020
2
August, 2021
1
August, 2022
1
February, 2020
1
May, 2019
Available data
385
bam
318
bigWig
283
tsv
178
fastq
62
bed narrowPeak
20
bigBed narrowPeak
17
bed bed3+
9
bed broadPeak
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
2
tagAlign
1
bedpe
1
hdf5
Organism
447
Homo sapiens
Biosample type
432
tissue
8
cell line
8
primary cell
Organ
795
pancreas
688
liver
605
connective tissue
459
adipose tissue
epithelium
324
kidney
296
heart
165
vasculature
160
blood vessel
159
bone element
121
artery
99
brain
73
limb
68
blood
68
bodily fluid
63
musculature of body
58
eye
25
embryo
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
7
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
420
AMP
28
T1D
Genome assembly (visualization)
358
hg19
337
GRCh38
Lab
385
AMP-T2D consortium
51
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
4
inconsistent ontology term
1
audit script error
Audit category:
6
missing controlled_by
Audit category:
1
inconsistent assembly
biosample_type!
stem cell
target.investigated_as!
histone modification
organ_slims!
epithelium
BIOSAMPLE
ASSAY
448 results
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total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
DNase-seq
single cell RNA-seq
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
284
58
20
7
1
3
4
1
1
body of pancreas
3
4
18
4
2
2
pancreas
2
4
4
2
1
2
1
1
1
endocrine pancreas
2
cell line
Panc1
6
1
1
primary cell
pancreatic stellate cell
4
co-expressing pancreatic endocrine cell
2
unclassified pancreatic endocrine cell
2
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