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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
246
total RNA-seq
63
ChIP-seq
21
ATAC-seq
14
single cell RNA-seq
11
snATAC-seq
5
Hi-C
4
MeRIP-seq
4
WGBS
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
262
Transcription
63
DNA binding
32
DNA accessibility
6
DNA methylation
5
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
May, 2021
20
November, 2019
18
February, 2023
11
October, 2018
11
October, 2019
8
April, 2018
8
January, 2021
7
March, 2020
6
July, 2019
6
May, 2022
6
September, 2017
5
March, 2019
4
November, 2018
4
November, 2020
2
August, 2021
1
August, 2022
1
February, 2020
1
May, 2019
1
October, 2017
Available data
438
bam
376
bigWig
247
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
bedpe bed3+
3
hic
1
bedpe
1
hdf5
Organism
372
Homo sapiens
Biosample type
345
tissue
20
primary cell
8
cell line
Organ
674
pancreas
607
connective tissue
478
adipose tissue
epithelium
350
liver
199
heart
171
kidney
150
bone element
103
vasculature
101
blood vessel
83
brain
67
artery
36
musculature of body
30
limb
28
eye
21
embryo
20
lung
16
nerve
15
blood
15
bodily fluid
11
spleen
9
vein
8
skeleton
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
345
AMP
28
T1D
Genome assembly (visualization)
277
hg19
274
GRCh38
Lab
329
AMP-T2D consortium
32
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:
21
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
bed narrowPeak
organ_slims!
epithelium
month_released!
May, 2021
BIOSAMPLE
ASSAY
373 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
Hi-C
MeRIP-seq
WGBS
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
242
30
21
6
7
3
4
1
body of pancreas
3
9
2
2
pancreas
1
3
4
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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