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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
316
total RNA-seq
81
ATAC-seq
55
ChIP-seq
11
snATAC-seq
10
MeRIP-seq
8
DNase-seq
6
Hi-C
6
single cell RNA-seq
4
WGBS
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
324
Transcription
102
DNA accessibility
55
DNA binding
6
3D chromatin structure
6
DNA methylation
Target of assay
histone
93
histone modification
51
broad histone mark
42
narrow histone mark
41
control
19
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
120
July, 2018
107
August, 2017
59
May, 2021
45
November, 2019
26
February, 2021
24
May, 2022
21
October, 2018
19
February, 2023
11
March, 2020
11
October, 2019
10
November, 2020
8
January, 2021
7
November, 2018
6
April, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
August, 2021
4
June, 2019
1
August, 2022
1
February, 2020
1
May, 2019
Available data
416
bam
347
bigWig
309
tsv
171
fastq
65
bed narrowPeak
20
bigBed narrowPeak
17
bed bed3+
9
bed broadPeak
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
4
tagAlign
1
bedpe
1
hdf5
Organism
505
Homo sapiens
Biosample type
432
tissue
primary cell
73
cell line
2
in vitro differentiated cells
Organ
678
liver
575
connective tissue
507
pancreas
457
adipose tissue
298
kidney
285
heart
bone element
145
blood vessel
145
vasculature
119
artery
91
epithelium
81
brain
73
limb
60
blood
60
bodily fluid
57
musculature of body
54
eye
25
embryo
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
477
AMP
30
T1D
Genome assembly (visualization)
389
hg19
365
GRCh38
Lab
438
AMP-T2D consortium
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:
64
inconsistent ontology term
1
audit script error
Audit category:
6
missing controlled_by
Audit category:
1
inconsistent assembly
biosample_type!
primary cell
organ_slims!
bone element
target.investigated_as!
histone
BIOSAMPLE
ASSAY
507 results
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Clear Filters
total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
MeRIP-seq
DNase-seq
Hi-C
single cell RNA-seq
WGBS
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
278
58
20
7
4
1
3
6
1
1
body of pancreas
3
4
18
4
2
2
pancreas
2
4
4
2
1
2
1
1
1
endocrine pancreas
2
cell line
EndoC_BH1
33
19
3
6
1
2
1
Panc1
6
1
1
in vitro differentiated cells
pancreatic PP cell
2
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