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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
104
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
DNA accessibility
104
DNA binding
70
Transcription
53
DNA methylation
8
3D chromatin structure
Target of assay
70
histone
70
histone modification
36
narrow histone mark
34
broad histone mark
28
control
9
transcription factor
8
RNA binding protein
3
nucleotide modification
1
chromatin remodeller
Date released
41
May, 2022
33
April, 2018
33
July, 2018
26
August, 2017
25
October, 2019
September, 2018
15
December, 2017
14
November, 2019
8
July, 2019
6
August, 2021
6
February, 2021
6
June, 2019
6
November, 2017
6
November, 2020
5
May, 2019
4
May, 2021
3
August, 2018
3
October, 2022
2
March, 2020
1
December, 2019
1
February, 2023
1
June, 2018
Available data
174
bam
150
bigWig
119
fastq
77
tsv
74
bed narrowPeak
41
zippedFastqFolder
36
bigBed narrowPeak
7
tagAlign
6
bed bedMethyl
6
bed broadPeak
6
bigBed bedMethyl
6
bigBed broadPeak
6
hic
5
bed bed3+
5
bedpe bed3+
3
cool
2
hdf5
Organism
244
Homo sapiens
Biosample type
201
primary cell
25
cell line
18
in vitro differentiated cells
1
tissue
Organ
573
liver
344
pancreas
249
epithelium
244
heart
232
brain
176
connective tissue
131
kidney
117
vasculature
113
blood vessel
85
adipose tissue
85
bone element
71
limb
60
blood
60
bodily fluid
55
musculature of body
36
artery
35
nerve
embryo
23
spleen
19
vein
10
eye
10
lung
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
small intestine
1
stomach
1
urinary bladder
Project
193
AMP
50
HPAP
2
T1D
Genome assembly (visualization)
162
hg19
144
GRCh38
Lab
189
AMP-T2D consortium
50
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
32
inconsistent ontology term
5
audit script error
Audit category:
4
inconsistent control read length
assay_slims!
DNA accessibility
assay_title!
total RNA-seq
month_released!
September, 2018
organ_slims!
embryo
BIOSAMPLE
ASSAY
245 results
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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
13
12
31
1
pancreatic beta cell
13
12
16
1
endothelial cell of umbilical vein
17
2
pancreatic acinar cell
12
1
epithelial cell of proximal tubule
10
1
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cell line
EndoC_BH1
15
1
6
2
1
in vitro differentiated cells
hepatocyte
15
pancreatic PP cell
3
tissue
renal glomerulus
1
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