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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
128
total RNA-seq
ATAC-seq
94
ChIP-seq
69
single cell RNA-seq
47
WGBS
19
DNase-seq
7
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
197
Transcription
94
DNA binding
53
DNA methylation
20
DNA accessibility
7
3D chromatin structure
Target of assay
68
histone
68
histone modification
37
narrow histone mark
31
broad histone mark
24
control
5
RNA binding protein
5
transcription factor
3
nucleotide modification
Date released
47
September, 2018
41
May, 2022
40
February, 2023
34
October, 2019
33
April, 2018
33
July, 2018
32
February, 2021
26
August, 2017
20
June, 2019
16
September, 2020
November, 2019
13
July, 2019
6
August, 2021
6
December, 2019
6
November, 2017
6
November, 2020
5
May, 2019
5
May, 2021
4
March, 2020
3
August, 2018
3
October, 2022
2
October, 2018
June, 2018
Available data
254
bam
234
bigWig
205
fastq
151
tsv
86
bed narrowPeak
41
zippedFastqFolder
40
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
6
bed bedMethyl
6
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
1
tar
Organism
380
Homo sapiens
Biosample type
333
primary cell
45
cell line
in vitro differentiated cells
3
tissue
Organ
755
pancreas
753
liver
579
connective tissue
484
adipose tissue
381
epithelium
345
heart
282
brain
279
kidney
190
vasculature
184
blood vessel
147
bone element
114
limb
96
artery
95
musculature of body
68
blood
68
bodily fluid
42
nerve
33
eye
24
spleen
22
vein
20
lung
18
ureter
8
embryo
5
gonad
5
ovary
4
skeleton
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
274
AMP
103
HPAP
4
T1D
Genome assembly (visualization)
239
hg19
227
GRCh38
Lab
272
AMP-T2D consortium
103
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
51
inconsistent ontology term
5
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
assay_title!
ATAC-seq
biosample_type!
in vitro differentiated cells
month_released!
June, 2018
November, 2019
BIOSAMPLE
ASSAY
381 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
WGBS
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
52
13
12
31
1
pancreatic beta cell
21
13
12
16
1
pancreatic ductal cell
4
13
9
pancreatic acinar cell
4
8
12
1
endothelial cell of umbilical vein
17
2
2
1
+ See 18 more…
cell line
EndoC_BH1
32
2
6
2
1
glomerular visceral epithelial cell
1
1
tissue
pigmented layer of retina
2
renal glomerulus
1
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