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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
83
ChIP-seq
22
ATAC-seq
3
DNase-seq
3
Hi-C
3
WGBS
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
83
DNA binding
25
DNA accessibility
4
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
58
histone modification
41
narrow histone mark
31
control
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
194
May, 2020
40
May, 2022
33
August, 2021
14
August, 2017
10
July, 2019
5
December, 2019
4
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
Available data
652
bam
592
bigWig
fastq
412
bed narrowPeak
337
bigBed narrowPeak
174
tsv
68
tagAlign
55
bed broadPeak
55
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
309
Homo sapiens
Biosample type
263
tissue
33
cell line
13
primary cell
Organ
551
connective tissue
449
pancreas
427
adipose tissue
339
kidney
336
heart
309
liver
246
epithelium
201
brain
185
vasculature
182
blood vessel
159
bone element
127
artery
88
limb
74
musculature of body
61
eye
27
nerve
18
ureter
16
skeleton
13
vein
10
embryo
9
blood
9
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
309
AMP
Genome assembly (visualization)
230
hg19
184
GRCh38
Lab
239
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
target.investigated_as!
broad histone mark
files.file_type!
fastq
lab.title!
Xin Sun, UCSD
BIOSAMPLE
ASSAY
309 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
63
20
1
2
1
1
1
right lobe of liver
3
1
1
2
cell line
HepG2
9
17
1
1
2
2
1
primary cell
hepatocyte
5
3
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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