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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
total RNA-seq
152
ATAC-seq
single cell RNA-seq
51
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
8
DNase-seq
2
Capture-C
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
405
Transcription
DNA binding
173
DNA accessibility
53
DNA methylation
9
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
120
July, 2018
104
May, 2022
94
August, 2017
57
May, 2021
56
February, 2023
42
November, 2019
40
September, 2018
32
February, 2021
19
September, 2020
11
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
7
November, 2018
6
April, 2018
6
July, 2019
5
March, 2019
5
October, 2017
5
October, 2019
5
September, 2017
4
August, 2021
4
June, 2019
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
Available data
417
bam
388
bigWig
343
tsv
255
fastq
80
zippedFastqFolder
74
bed narrowPeak
32
bigBed narrowPeak
9
bed broadPeak
8
bed bed3+
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
653
Homo sapiens
Biosample type
388
tissue
202
primary cell
64
cell line
Organ
654
pancreas
527
connective tissue
418
adipose tissue
325
epithelium
238
kidney
238
liver
166
heart
159
bone element
128
vasculature
125
blood vessel
artery
65
brain
56
eye
56
limb
56
musculature of body
18
ureter
16
skeleton
15
embryo
11
lung
9
blood
9
bodily fluid
8
nerve
5
spleen
5
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
472
AMP
152
HPAP
30
T1D
Genome assembly (visualization)
421
hg19
404
GRCh38
Lab
433
AMP-T2D consortium
152
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
61
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
organ_slims!
artery
assay_slims!
DNA binding
assay_title!
single cell RNA-seq
BIOSAMPLE
ASSAY
654 results
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total RNA-seq
ATAC-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
DNase-seq
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
58
7
4
3
1
1
1
body of pancreas
3
4
2
4
2
pancreas
2
2
4
1
2
1
1
1
primary cell
pancreatic alpha cell
52
35
31
1
pancreatic beta cell
21
23
16
1
pancreatic acinar cell
4
9
1
pancreatic ductal cell
4
4
cell line
EndoC_BH1
33
19
6
1
2
1
Panc1
1
1
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