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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
203
total RNA-seq
105
ChIP-seq
50
ATAC-seq
7
DNase-seq
7
pCHi-C
3
Hi-C
3
small RNA-seq
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
207
Transcription
105
DNA binding
57
DNA accessibility
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
61
histone
61
histone modification
44
narrow histone mark
32
control
17
broad histone mark
12
transcription factor
2
RNA binding protein
Date released
194
May, 2020
40
May, 2022
35
August, 2021
31
February, 2023
28
October, 2019
24
August, 2017
9
June, 2019
8
July, 2019
5
December, 2019
3
February, 2021
3
March, 2020
2
February, 2020
Available data
687
bam
627
bigWig
474
bed narrowPeak
fastq
364
bigBed narrowPeak
179
tsv
86
tagAlign
67
bed broadPeak
67
bigBed broadPeak
17
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
382
Homo sapiens
Biosample type
331
tissue
34
cell line
17
primary cell
Organ
579
connective tissue
444
adipose tissue
432
pancreas
383
heart
350
kidney
322
liver
263
brain
227
vasculature
225
blood vessel
220
epithelium
159
bone element
141
artery
121
limb
90
musculature of body
60
eye
43
nerve
22
vein
20
lung
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
382
AMP
Genome assembly (visualization)
267
hg19
194
GRCh38
Lab
311
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
assay_slims!
DNA methylation
files.file_type!
fastq
organ_slims!
large intestine
BIOSAMPLE
ASSAY
382 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
pCHi-C
Hi-C
small RNA-seq
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
78
20
1
1
1
1
islet of Langerhans
14
2
1
4
retina
3
15
3
pigmented layer of retina
2
12
right lobe of liver
3
1
2
cell line
HepG2
9
18
1
2
1
2
1
primary cell
hepatocyte
5
4
1
retinal pigment epithelial cell
3
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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