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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
283
total RNA-seq
151
ChIP-seq
62
ATAC-seq
14
single cell RNA-seq
11
snATAC-seq
8
DNase-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
151
DNA binding
83
DNA accessibility
6
DNA methylation
5
3D chromatin structure
Target of assay
102
histone
102
histone modification
56
broad histone mark
46
narrow histone mark
34
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
159
August, 2017
126
July, 2018
51
October, 2018
39
November, 2019
37
May, 2021
24
May, 2022
18
February, 2023
18
October, 2019
11
September, 2018
9
March, 2020
8
April, 2018
8
January, 2021
7
November, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
June, 2019
4
November, 2020
2
August, 2021
May, 2019
1
August, 2022
1
February, 2020
Available data
472
bam
411
bigWig
283
tsv
243
fastq
140
bed narrowPeak
68
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
16
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
1
bedpe
1
hdf5
Organism
542
Homo sapiens
Biosample type
503
tissue
31
primary cell
15
cell line
Organ
944
pancreas
791
liver
684
connective tissue
epithelium
491
adipose tissue
372
heart
349
kidney
258
brain
186
vasculature
180
blood vessel
159
bone element
136
artery
115
limb
89
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
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
519
AMP
30
T1D
Genome assembly (visualization)
451
hg19
424
GRCh38
Lab
486
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:
33
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
organ_slims!
thymus
epithelium
month_released!
May, 2019
BIOSAMPLE
ASSAY
549 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
278
50
58
6
7
1
3
4
1
1
body of pancreas
3
33
4
4
2
2
pancreas
2
16
4
2
1
2
1
1
1
endocrine pancreas
16
primary cell
pancreatic endocrine cell
23
pancreatic stellate cell
4
co-expressing pancreatic endocrine cell
2
unclassified pancreatic endocrine cell
2
cell line
Panc1
13
1
1
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