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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
42
ChIP-seq
22
ATAC-seq
5
pCHi-C
3
DNase-seq
3
Hi-C
3
WGBS
3
small RNA-seq
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
42
DNA binding
25
DNA accessibility
4
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
histone
58
histone modification
41
narrow histone mark
31
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
167
May, 2020
40
May, 2022
29
August, 2021
10
July, 2019
6
August, 2017
5
December, 2019
5
March, 2020
3
February, 2021
2
June, 2019
2
October, 2019
1
February, 2020
Available data
602
bam
540
bigWig
fastq
361
bed narrowPeak
323
bigBed narrowPeak
176
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
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
270
Homo sapiens
Biosample type
228
tissue
31
cell line
11
primary cell
Organ
531
connective tissue
424
pancreas
416
adipose tissue
324
kidney
296
heart
268
liver
225
epithelium
161
vasculature
159
bone element
158
blood vessel
121
artery
88
brain
73
limb
61
musculature of body
58
eye
20
lung
19
nerve
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
7
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
270
AMP
Genome assembly (visualization)
197
hg19
161
GRCh38
Lab
202
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
target.investigated_as!
histone
files.file_type!
fastq
BIOSAMPLE
ASSAY
270 results
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total RNA-seq
ChIP-seq
ATAC-seq
pCHi-C
DNase-seq
Hi-C
WGBS
small RNA-seq
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
26
20
1
1
2
1
1
right lobe of liver
3
1
1
2
sigmoid colon
1
small intestine
1
cell line
HepG2
9
15
1
2
1
2
1
primary cell
hepatocyte
5
1
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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