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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
129
total RNA-seq
107
ChIP-seq
103
ATAC-seq
70
single cell RNA-seq
47
WGBS
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
RNA microarray
Assay category
199
Transcription
123
DNA accessibility
107
DNA binding
53
DNA methylation
8
3D chromatin structure
Target of assay
78
histone
78
histone modification
41
narrow histone mark
37
broad histone mark
26
control
6
RNA binding protein
6
transcription factor
3
nucleotide modification
Date released
80
May, 2022
61
September, 2018
52
February, 2023
35
October, 2019
33
April, 2018
33
July, 2018
32
February, 2021
29
August, 2017
21
May, 2021
20
June, 2019
19
September, 2020
16
November, 2019
13
July, 2019
7
August, 2020
6
August, 2021
6
March, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
October, 2022
2
October, 2018
1
June, 2018
Available data
293
bam
281
bigWig
238
fastq
153
tsv
133
bed narrowPeak
80
zippedFastqFolder
62
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
1
tar
Organism
498
Homo sapiens
Biosample type
406
primary cell
79
cell line
in vitro differentiated cells
14
tissue
Organ
936
pancreas
723
liver
585
connective tissue
499
epithelium
488
adipose tissue
392
heart
352
kidney
284
brain
236
vasculature
230
blood vessel
141
artery
122
limb
96
musculature of body
75
bone element
61
eye
54
blood
54
bodily fluid
43
nerve
22
vein
20
lung
18
ureter
16
skeleton
16
spleen
8
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
343
AMP
152
HPAP
4
T1D
Genome assembly (visualization)
291
hg19
274
GRCh38
Lab
341
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
86
inconsistent ontology term
4
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
assay_title!
RNA microarray
biosample_type!
in vitro differentiated cells
month_released!
November, 2018
BIOSAMPLE
ASSAY
499 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
DNase-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
primary cell
pancreatic alpha cell
52
13
35
12
31
1
pancreatic beta cell
21
13
23
12
16
1
pancreatic acinar cell
4
8
9
12
1
pancreatic ductal cell
4
13
4
10
endothelial cell of umbilical vein
17
2
2
1
+ See 19 more…
cell line
EndoC_BH1
33
15
19
1
6
2
1
glomerular visceral epithelial cell
1
1
tissue
pigmented layer of retina
2
12
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