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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
161
ChIP-seq
22
ATAC-seq
5
pCHi-C
4
Hi-C
3
small RNA-seq
2
STARR-seq
2
WGBS
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
193
Transcription
161
DNA binding
22
DNA accessibility
4
3D chromatin structure
3
DNA methylation
1
DNA sequencing
Target of assay
97
control
44
histone
44
histone modification
38
narrow histone mark
20
transcription factor
6
broad histone mark
3
RNA binding protein
1
recombinant protein
Date released
194
May, 2020
66
November, 2017
August, 2017
40
May, 2022
35
August, 2021
13
December, 2017
11
October, 2019
10
July, 2019
5
December, 2019
5
January, 2019
5
March, 2020
3
February, 2021
2
November, 2018
1
December, 2018
1
February, 2020
Available data
655
bam
604
bigWig
437
fastq
423
bed narrowPeak
bigBed narrowPeak
176
tsv
66
tagAlign
63
bed broadPeak
63
bigBed broadPeak
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
391
Homo sapiens
Biosample type
270
tissue
108
cell line
12
primary cell
1
in vitro differentiated cells
Organ
684
pancreas
534
connective tissue
426
adipose tissue
422
epithelium
385
liver
299
heart
250
kidney
159
bone element
159
brain
153
vasculature
151
blood vessel
116
artery
55
eye
38
limb
37
embryo
23
musculature of body
20
lung
17
nerve
16
skeleton
15
blood
15
bodily fluid
12
spleen
9
vein
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
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
391
AMP
Genome assembly (visualization)
257
hg19
192
GRCh38
Lab
320
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
2
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
files.file_type!
bigBed narrowPeak
month_released!
August, 2017
BIOSAMPLE
ASSAY
391 results
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total RNA-seq
ChIP-seq
ATAC-seq
pCHi-C
Hi-C
small RNA-seq
STARR-seq
WGBS
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
64
20
1
1
1
1
right lobe of liver
3
3
2
1
islet of Langerhans
4
gastric (mucosa of stomach)
1
ovary
1
cell line
HepG2
14
85
1
2
2
2
1
1
primary cell
hepatocyte
5
4
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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