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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
282
total RNA-seq
146
ChIP-seq
61
ATAC-seq
14
single cell RNA-seq
11
snATAC-seq
8
DNase-seq
4
MeRIP-seq
4
WGBS
3
Hi-C
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
298
Transcription
146
DNA binding
82
DNA accessibility
6
DNA methylation
3
3D chromatin structure
Target of assay
97
histone
97
histone modification
52
broad histone mark
45
narrow histone mark
34
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
152
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
October, 2017
4
June, 2019
4
November, 2020
3
March, 2019
2
May, 2019
1
August, 2022
1
February, 2020
Available data
467
bam
406
bigWig
282
tsv
236
fastq
135
bed narrowPeak
63
bigBed narrowPeak
29
bed bed3+
15
bed broadPeak
9
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
2
bedpe bed3+
2
hic
1
hdf5
Organism
540
Homo sapiens
Biosample type
494
tissue
31
primary cell
15
cell line
Organ
934
pancreas
760
liver
683
connective tissue
epithelium
490
adipose tissue
393
heart
352
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
19
lung
18
ureter
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
510
AMP
30
T1D
Genome assembly (visualization)
444
hg19
418
GRCh38
Lab
481
AMP-T2D consortium
51
Kyle Gaulton, UCSD
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
1
inconsistent assembly
organ_slims!
epithelium
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
540 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
MeRIP-seq
WGBS
Hi-C
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
277
50
57
6
7
1
4
1
1
1
body of pancreas
3
35
4
4
2
2
pancreas
2
9
4
2
2
1
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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