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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
70
single cell RNA-seq
47
WGBS
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
199
Transcription
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
47
September, 2018
41
May, 2022
40
February, 2023
33
April, 2018
33
July, 2018
32
February, 2021
28
October, 2019
26
August, 2017
16
September, 2020
15
November, 2019
13
July, 2019
6
August, 2021
6
December, 2019
6
June, 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
1
June, 2018
Available data
251
bam
229
bigWig
206
fastq
153
tsv
79
bed narrowPeak
41
zippedFastqFolder
22
bigBed narrowPeak
6
bed bedMethyl
6
bed broadPeak
6
bigBed bedMethyl
6
bigBed broadPeak
6
hic
5
bed bed3+
5
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
Organism
376
Homo sapiens
Biosample type
315
primary cell
59
cell line
in vitro differentiated cells
3
tissue
Organ
770
pancreas
747
liver
571
connective tissue
482
adipose tissue
377
epithelium
275
heart
249
brain
191
kidney
178
vasculature
174
blood vessel
147
bone element
92
artery
78
limb
61
musculature of body
60
blood
60
bodily fluid
40
nerve
29
eye
23
spleen
19
vein
10
lung
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
270
AMP
103
HPAP
4
T1D
Genome assembly (visualization)
241
hg19
223
GRCh38
Lab
268
AMP-T2D consortium
103
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
65
inconsistent ontology term
5
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
biosample_type!
in vitro differentiated cells
assay_slims!
DNA accessibility
BIOSAMPLE
ASSAY
377 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
WGBS
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
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
10
pancreatic acinar cell
4
8
12
1
endothelial cell of umbilical vein
17
2
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cell line
EndoC_BH1
33
15
1
6
2
1
glomerular visceral epithelial cell
1
tissue
pigmented layer of retina
2
renal glomerulus
1
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