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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
275
total RNA-seq
63
ChIP-seq
14
single cell RNA-seq
10
ATAC-seq
4
Hi-C
4
MeRIP-seq
4
WGBS
2
RRBS
2
small RNA-seq
1
pCHi-C
1
snATAC-seq
Assay category
291
Transcription
63
DNA binding
11
DNA accessibility
6
DNA methylation
4
3D chromatin structure
Target of assay
35
control
24
histone
24
histone modification
14
narrow histone mark
10
broad histone mark
6
transcription factor
2
nucleotide modification
1
RNA binding protein
Date released
127
August, 2017
126
July, 2018
37
May, 2021
20
November, 2019
11
October, 2018
11
October, 2019
8
April, 2018
6
July, 2019
6
May, 2022
6
September, 2017
5
March, 2019
5
March, 2020
4
November, 2018
4
November, 2020
August, 2021
1
August, 2022
1
February, 2020
1
May, 2019
1
October, 2017
Available data
472
bam
410
bigWig
282
tsv
243
fastq
bed narrowPeak
69
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
16
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
hic
2
bedpe bed3+
1
bedpe
1
hdf5
Organism
379
Homo sapiens
Biosample type
352
tissue
20
primary cell
8
cell line
Organ
698
pancreas
605
connective tissue
477
adipose tissue
epithelium
332
liver
150
bone element
110
heart
105
kidney
97
vasculature
95
blood vessel
83
brain
65
artery
36
musculature of body
30
limb
28
eye
20
lung
16
nerve
15
embryo
11
spleen
9
vein
8
skeleton
7
blood
7
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
380
AMP
T1D
Genome assembly (visualization)
313
hg19
310
GRCh38
Lab
363
AMP-T2D consortium
7
Kyle Gaulton, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
4
inconsistent ontology term
1
audit script error
Audit category:
21
missing controlled_by
Audit category:
1
inconsistent assembly
award.project!
T1D
files.file_type!
bed narrowPeak
month_released!
August, 2021
organ_slims!
epithelium
BIOSAMPLE
ASSAY
380 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
Hi-C
MeRIP-seq
WGBS
RRBS
small RNA-seq
pCHi-C
snATAC-seq
tissue
islet of Langerhans
270
30
6
10
2
4
1
1
body of pancreas
3
9
2
2
pancreas
2
3
1
2
1
1
endocrine pancreas
2
primary cell
pancreatic endocrine cell
12
pancreatic stellate cell
4
co-expressing pancreatic endocrine cell
2
unclassified pancreatic endocrine cell
2
cell line
Panc1
7
1
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