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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
189
total RNA-seq
139
ChIP-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
193
Transcription
139
DNA binding
7
DNA methylation
4
3D chromatin structure
1
DNA accessibility
1
DNA sequencing
Target of assay
108
control
22
histone
22
histone modification
13
broad histone mark
9
narrow histone mark
9
transcription factor
2
RNA binding protein
1
recombinant protein
Date released
167
May, 2020
66
November, 2017
36
August, 2017
20
May, 2022
18
August, 2021
13
December, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
March, 2020
2
February, 2021
2
November, 2018
1
December, 2018
1
February, 2020
1
October, 2019
Available data
680
bam
622
bigWig
465
fastq
bed narrowPeak
358
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
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
350
Homo sapiens
Biosample type
248
tissue
93
cell line
8
primary cell
1
in vitro differentiated cells
Organ
665
pancreas
601
connective tissue
478
adipose tissue
350
liver
304
epithelium
200
heart
160
kidney
103
vasculature
101
blood vessel
82
brain
67
artery
67
bone element
35
musculature of body
30
limb
28
eye
20
lung
19
embryo
16
nerve
15
blood
15
bodily fluid
11
spleen
9
vein
8
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
Project
350
AMP
Genome assembly (visualization)
188
hg19
164
GRCh38
Lab
313
AMP-T2D consortium
20
Karen Mohlke, UNC
17
Bing Ren, UCSD
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
assay_title!
CRISPRi RNA-seq
files.file_type!
bed narrowPeak
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
350 results
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total RNA-seq
ChIP-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
63
3
1
1
1
1
1
right lobe of liver
3
3
1
2
1
cell line
HepG2
14
71
1
2
2
2
1
primary cell
hepatocyte
5
1
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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