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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
168
ChIP-seq
82
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
9
DNase-seq
6
Hi-C
6
WGBS
6
single cell RNA-seq
2
Capture-C
2
FAIRE-seq
2
RRBS
2
pCHi-C
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
324
Transcription
168
DNA binding
104
DNA accessibility
8
DNA methylation
6
3D chromatin structure
Target of assay
99
histone
99
histone modification
55
broad histone mark
49
control
44
narrow histone mark
25
transcription factor
9
RNA binding protein
5
nucleotide modification
3
other context
3
other post-translational modification
Date released
147
August, 2017
120
July, 2018
61
May, 2021
55
November, 2019
51
October, 2018
26
February, 2021
24
May, 2022
19
February, 2023
18
October, 2019
16
November, 2018
15
March, 2020
10
November, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
July, 2019
6
October, 2017
6
September, 2017
5
March, 2019
4
August, 2021
4
June, 2019
2
May, 2019
1
August, 2022
1
February, 2020
Available data
519
bam
447
bigWig
310
tsv
237
fastq
160
bed narrowPeak
82
bigBed narrowPeak
30
bed bed3+
22
bed broadPeak
19
tagAlign
8
bed bedMethyl
8
bigBed bedMethyl
8
bigBed broadPeak
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
617
Homo sapiens
Biosample type
530
tissue
primary cell
92
cell line
3
in vitro differentiated cells
Organ
777
liver
645
connective tissue
600
pancreas
489
adipose tissue
380
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
118
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
37
embryo
25
spleen
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
591
AMP
34
T1D
Genome assembly (visualization)
487
hg19
459
GRCh38
Lab
556
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:
76
inconsistent ontology term
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
award.project!
LungMap
biosample_type!
primary cell
BIOSAMPLE
ASSAY
625 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
MeRIP-seq
DNase-seq
Hi-C
WGBS
single cell RNA-seq
Capture-C
FAIRE-seq
RRBS
pCHi-C
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
tissue
islet of Langerhans
278
50
58
7
4
1
3
6
1
1
body of pancreas
3
35
4
4
2
2
pancreas
2
16
4
2
1
2
1
1
1
spleen
20
1
1
2
1
endocrine pancreas
16
cell line
EndoC_BH1
33
15
19
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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