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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
103
total RNA-seq
89
ATAC-seq
70
single cell RNA-seq
47
WGBS
29
ChIP-seq
19
DNase-seq
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
1
RNA microarray
Assay category
173
Transcription
109
DNA accessibility
53
DNA methylation
29
DNA binding
8
3D chromatin structure
Target of assay
histone
57
histone modification
30
narrow histone mark
27
broad histone mark
26
control
6
RNA binding protein
6
transcription factor
3
nucleotide modification
Date released
80
May, 2022
52
February, 2023
September, 2018
33
April, 2018
33
July, 2018
32
February, 2021
20
May, 2021
19
September, 2020
18
June, 2019
15
August, 2017
14
October, 2019
13
July, 2019
7
August, 2020
6
December, 2019
6
November, 2019
6
November, 2020
5
March, 2020
5
September, 2017
4
November, 2017
3
August, 2018
3
August, 2021
3
October, 2022
2
May, 2019
2
October, 2018
1
June, 2018
Available data
175
bam
166
bigWig
161
fastq
128
tsv
80
zippedFastqFolder
46
bed narrowPeak
31
bigBed narrowPeak
18
bed bed3+
18
bed broadPeak
18
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
3
cool
2
hdf5
1
tagAlign
1
tar
Organism
381
Homo sapiens
Biosample type
300
primary cell
67
cell line
15
tissue
in vitro differentiated cells
Organ
753
pancreas
686
liver
546
connective tissue
458
adipose tissue
382
epithelium
324
kidney
295
heart
165
vasculature
160
blood vessel
159
bone element
121
artery
99
brain
73
limb
68
blood
68
bodily fluid
63
musculature of body
58
eye
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
8
embryo
7
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
228
AMP
152
HPAP
2
T1D
Genome assembly (visualization)
176
hg19
161
GRCh38
Lab
224
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
72
inconsistent ontology term
5
audit script error
biosample_type!
in vitro differentiated cells
month_released!
September, 2018
target.investigated_as!
histone
BIOSAMPLE
ASSAY
382 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
ChIP-seq
DNase-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
RNA microarray
primary cell
pancreatic alpha cell
42
32
12
31
6
1
pancreatic beta cell
11
19
12
16
6
1
pancreatic acinar cell
2
6
12
1
pancreatic delta cell
11
pancreatic ductal cell
10
+ See 19 more…
cell line
EndoC_BH1
33
19
3
1
6
2
1
glomerular visceral epithelial cell
1
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
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