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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
521
ChIP-seq
180
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
WGBS
3
Hi-C
3
pCHi-C
3
small RNA-seq
1
single cell RNA-seq
Assay category
521
DNA binding
184
Transcription
29
DNA accessibility
4
DNA methylation
3
3D chromatin structure
Target of assay
315
transcription factor
104
control
99
histone modification
98
histone
81
recombinant protein
57
narrow histone mark
55
RNA binding protein
41
broad histone mark
17
chromatin remodeller
2
other context
2
other post-translational modification
Date released
305
November, 2017
194
May, 2020
63
December, 2017
53
August, 2017
49
November, 2018
40
May, 2022
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
August, 2021
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
668
bam
596
bigWig
452
fastq
415
bed narrowPeak
346
bigBed narrowPeak
165
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
744
Homo sapiens
Biosample type
360
tissue
356
cell line
15
in vitro differentiated cells
13
primary cell
Organ
882
pancreas
744
liver
664
connective tissue
497
epithelium
477
adipose tissue
385
heart
348
kidney
280
brain
234
vasculature
229
blood vessel
159
bone element
141
artery
121
limb
92
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
36
embryo
23
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
744
AMP
Genome assembly (visualization)
596
hg19
525
GRCh38
Lab
704
AMP-T2D consortium
40
Karen Mohlke, UNC
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
22
inconsistent control read length
2
inconsistent control run_type
files.file_type!
bigBed bedMethyl
audit.NOT_COMPLIANT.category!
missing controlled_by
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
744 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
single cell RNA-seq
tissue
liver
145
167
20
2
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
cell line
HepG2
347
5
1
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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