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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
534
ChIP-seq
181
total RNA-seq
23
ATAC-seq
6
DNase-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
1
single cell RNA-seq
Assay category
534
DNA binding
185
Transcription
29
DNA accessibility
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
104
control
100
histone modification
99
histone
82
recombinant protein
58
narrow histone mark
57
RNA binding protein
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
52
November, 2018
50
August, 2017
40
May, 2022
8
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
August, 2021
3
February, 2021
3
March, 2020
2
February, 2020
2
June, 2019
1
December, 2018
Available data
680
bam
607
bigWig
462
fastq
427
bed narrowPeak
358
bigBed narrowPeak
166
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
754
Homo sapiens
Biosample type
369
cell line
357
tissue
15
in vitro differentiated cells
13
primary cell
Organ
889
pancreas
753
liver
677
connective tissue
485
adipose tissue
471
epithelium
383
heart
348
kidney
284
brain
233
vasculature
228
blood vessel
159
bone element
141
artery
121
limb
90
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
37
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
754
AMP
Genome assembly (visualization)
608
hg19
530
GRCh38
Lab
714
AMP-T2D consortium
40
Karen Mohlke, UNC
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA methylation
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
754 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
single cell RNA-seq
cell line
HepG2
360
5
1
1
2
tissue
liver
145
167
20
2
1
1
1
1
right lobe of liver
10
3
1
2
2
C1 segment of cervical spinal cord
1
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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