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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
302
total RNA-seq
135
ChIP-seq
61
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
8
DNase-seq
4
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
304
Transcription
135
DNA binding
82
DNA accessibility
6
DNA methylation
4
3D chromatin structure
Target of assay
83
histone
83
histone modification
45
broad histone mark
39
control
38
narrow histone mark
18
transcription factor
8
RNA binding protein
5
nucleotide modification
Date released
147
August, 2017
120
July, 2018
61
May, 2021
November, 2019
51
October, 2018
26
February, 2021
24
May, 2022
19
February, 2023
18
October, 2019
14
March, 2020
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
442
bam
400
bigWig
289
tsv
213
fastq
115
bed narrowPeak
69
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
2
bedpe bed3+
2
hic
1
bedpe
1
hdf5
Organism
537
Homo sapiens
Biosample type
466
tissue
primary cell
76
cell line
3
in vitro differentiated cells
Organ
777
liver
644
connective tissue
545
pancreas
488
adipose tissue
340
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
102
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
37
embryo
25
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
511
AMP
34
T1D
Genome assembly (visualization)
420
hg19
392
GRCh38
Lab
476
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:
60
inconsistent ontology term
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
month_released!
November, 2019
biosample_type!
primary cell
BIOSAMPLE
ASSAY
545 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
265
50
39
7
4
1
2
1
1
body of pancreas
3
35
4
4
2
2
pancreas
2
16
4
2
1
2
1
1
1
endocrine pancreas
16
cell line
EndoC_BH1
32
2
18
6
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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