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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
421
ChIP-seq
160
total RNA-seq
6
DNase-seq
5
WGBS
3
ATAC-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
421
DNA binding
164
Transcription
9
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
300
transcription factor
82
recombinant protein
76
control
57
RNA binding protein
42
histone modification
41
histone
23
broad histone mark
21
chromatin remodeller
18
narrow histone mark
2
other context
2
other post-translational modification
Date released
303
November, 2017
144
May, 2020
53
November, 2018
36
December, 2017
34
August, 2017
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
654
bam
561
bigWig
438
fastq
380
bed narrowPeak
331
bigBed narrowPeak
165
tsv
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
607
Homo sapiens
Biosample type
358
cell line
224
tissue
15
in vitro differentiated cells
10
primary cell
Organ
923
pancreas
662
connective tissue
607
liver
517
epithelium
483
adipose tissue
387
heart
352
kidney
230
vasculature
224
blood vessel
168
brain
159
bone element
135
artery
122
limb
81
musculature of body
68
blood
68
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
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
1
stomach
1
urinary bladder
Project
607
AMP
Genome assembly (visualization)
521
hg19
473
GRCh38
Lab
607
AMP-T2D consortium
Karen Mohlke, UNC
Bing Ren, UCSD
Audit category:
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
16
inconsistent control read length
8
inconsistent control run_type
audit.ERROR.category!
inconsistent control
files.file_type!
tagAlign
lab.title!
Bing Ren, UCSD
Karen Mohlke, UNC
BIOSAMPLE
ASSAY
607 results
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ChIP-seq
total RNA-seq
DNase-seq
WGBS
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
single cell RNA-seq
cell line
HepG2
348
5
1
1
1
2
tissue
liver
48
147
2
3
1
1
1
1
1
right lobe of liver
10
3
2
1
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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