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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
85
ChIP-seq
81
ATAC-seq
70
single cell RNA-seq
47
WGBS
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
199
Transcription
85
DNA binding
83
DNA accessibility
53
DNA methylation
8
3D chromatin structure
Target of assay
61
histone
61
histone modification
31
narrow histone mark
30
broad histone mark
26
control
3
nucleotide modification
1
RNA binding protein
1
transcription factor
Date released
80
May, 2022
52
February, 2023
47
September, 2018
33
April, 2018
33
July, 2018
32
February, 2021
26
August, 2017
21
May, 2021
21
October, 2019
19
September, 2020
16
November, 2019
13
July, 2019
7
August, 2020
6
August, 2021
6
December, 2019
6
March, 2020
6
November, 2020
3
August, 2018
3
October, 2022
2
June, 2019
2
November, 2017
2
October, 2018
1
June, 2018
1
May, 2019
Available data
293
bam
281
bigWig
238
fastq
154
tsv
133
bed narrowPeak
80
zippedFastqFolder
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
437
Homo sapiens
Biosample type
345
primary cell
78
cell line
15
tissue
in vitro differentiated cells
Organ
852
pancreas
562
connective tissue
480
adipose tissue
438
epithelium
432
liver
298
heart
250
kidney
159
bone element
159
brain
153
vasculature
151
blood vessel
116
artery
55
eye
49
musculature of body
38
limb
20
lung
17
nerve
16
skeleton
15
blood
15
bodily fluid
12
spleen
9
vein
8
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
282
AMP
152
HPAP
4
T1D
Genome assembly (visualization)
235
hg19
213
GRCh38
Lab
280
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
81
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
files.file_type!
bigBed narrowPeak
organ_slims!
large intestine
BIOSAMPLE
ASSAY
438 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
Hi-C
MeRIP-seq
RRBS
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
primary cell
pancreatic alpha cell
52
13
29
12
31
1
pancreatic beta cell
21
13
16
12
16
1
pancreatic acinar cell
4
8
4
12
1
pancreatic ductal cell
4
13
10
pancreatic delta cell
11
+ See 17 more…
cell line
EndoC_BH1
33
15
19
1
6
2
1
glomerular visceral epithelial cell
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
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