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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
184
total RNA-seq
100
ChIP-seq
22
ATAC-seq
3
DNase-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
100
DNA binding
25
DNA accessibility
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
58
histone modification
41
narrow histone mark
31
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
194
May, 2020
40
May, 2022
35
August, 2021
24
August, 2017
8
July, 2019
7
October, 2019
5
December, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
Available data
680
bam
621
bigWig
fastq
441
bed narrowPeak
358
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
322
Homo sapiens
Biosample type
275
tissue
34
cell line
13
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
322
AMP
Genome assembly (visualization)
234
hg19
188
GRCh38
Lab
251
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
assay_slims!
DNA methylation
organ_slims!
large intestine
files.file_type!
fastq
BIOSAMPLE
ASSAY
322 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
78
20
1
1
1
1
right lobe of liver
3
1
2
cell line
HepG2
9
18
1
1
2
2
1
primary cell
hepatocyte
5
4
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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