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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
322
total RNA-seq
97
ChIP-seq
81
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
8
DNase-seq
6
Hi-C
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
97
DNA binding
6
3D chromatin structure
6
DNA methylation
Target of assay
93
histone
93
histone modification
broad histone mark
42
narrow histone mark
41
control
19
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
125
August, 2017
120
July, 2018
61
May, 2021
49
November, 2019
32
October, 2018
26
February, 2021
24
May, 2022
19
February, 2023
14
March, 2020
14
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
2
May, 2019
1
August, 2022
1
February, 2020
Available data
452
bam
385
bigWig
309
tsv
188
fastq
101
bed narrowPeak
39
bigBed narrowPeak
23
bed bed3+
13
bed broadPeak
11
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
545
Homo sapiens
Biosample type
464
tissue
primary cell
82
cell line
3
in vitro differentiated cells
Organ
736
liver
605
connective tissue
549
pancreas
469
adipose tissue
308
kidney
303
heart
195
brain
163
blood vessel
163
vasculature
158
bone element
125
artery
105
epithelium
88
limb
66
musculature of body
61
blood
61
bodily fluid
56
eye
33
embryo
27
nerve
21
spleen
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
515
AMP
34
T1D
Genome assembly (visualization)
427
hg19
401
GRCh38
Lab
480
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:
70
inconsistent ontology term
1
audit script error
Audit category:
9
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
broad histone mark
biosample_type!
primary cell
BIOSAMPLE
ASSAY
549 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
MeRIP-seq
DNase-seq
Hi-C
WGBS
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
36
58
7
4
1
3
1
1
body of pancreas
3
24
4
4
2
2
pancreas
2
8
4
2
1
2
1
1
1
endocrine pancreas
8
cell line
EndoC_BH1
33
9
19
6
1
2
1
Panc1
9
1
1
in vitro differentiated cells
pancreatic PP cell
3
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