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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
289
total RNA-seq
120
ChIP-seq
62
ATAC-seq
11
snATAC-seq
8
DNase-seq
8
single cell RNA-seq
5
Hi-C
4
WGBS
2
FAIRE-seq
2
MeRIP-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
299
Transcription
120
DNA binding
83
DNA accessibility
6
DNA methylation
5
3D chromatin structure
Target of assay
103
histone
103
histone modification
56
broad histone mark
47
narrow histone mark
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
150
August, 2017
126
July, 2018
40
October, 2018
39
November, 2019
37
May, 2021
24
May, 2022
18
February, 2023
12
October, 2019
11
September, 2018
9
March, 2020
8
April, 2018
8
January, 2021
7
November, 2018
6
July, 2019
5
March, 2019
5
October, 2017
4
June, 2019
2
August, 2021
2
November, 2020
1
August, 2022
1
February, 2020
1
May, 2019
Available data
447
bam
412
bigWig
283
tsv
225
fastq
141
bed narrowPeak
69
bigBed narrowPeak
27
bed bed3+
21
bed broadPeak
14
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
1
bedpe
1
hdf5
Organism
510
Homo sapiens
Biosample type
476
tissue
31
primary cell
9
cell line
Organ
893
pancreas
683
liver
649
connective tissue
epithelium
467
adipose tissue
373
heart
342
kidney
255
brain
214
vasculature
209
blood vessel
159
bone element
132
artery
105
limb
90
musculature of body
63
blood
63
bodily fluid
60
eye
32
nerve
30
embryo
20
lung
20
vein
18
ureter
17
spleen
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
486
AMP
30
T1D
Genome assembly (visualization)
450
hg19
423
GRCh38
Lab
455
AMP-T2D consortium
51
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
4
inconsistent ontology term
1
audit script error
Audit category:
33
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
organ_slims!
epithelium
target.investigated_as!
control
BIOSAMPLE
ASSAY
516 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
DNase-seq
single cell RNA-seq
Hi-C
WGBS
FAIRE-seq
MeRIP-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
284
37
58
7
1
3
1
2
1
body of pancreas
3
26
4
4
2
2
pancreas
2
13
4
2
1
2
1
1
1
endocrine pancreas
14
primary cell
pancreatic endocrine cell
23
pancreatic stellate cell
4
co-expressing pancreatic endocrine cell
2
unclassified pancreatic endocrine cell
2
cell line
Panc1
7
1
1
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