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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
total RNA-seq
23
ATAC-seq
5
WGBS
4
DNase-seq
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
27
DNA accessibility
7
DNA methylation
4
3D chromatin structure
4
Transcription
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
63
December, 2017
54
August, 2017
53
November, 2018
51
May, 2020
26
August, 2021
20
May, 2022
6
July, 2019
6
October, 2019
3
February, 2021
June, 2019
2
March, 2020
1
December, 2018
Available data
520
bam
461
bigWig
460
fastq
439
bed narrowPeak
356
bigBed narrowPeak
86
tagAlign
61
bed broadPeak
61
bigBed broadPeak
11
bed bed3+
5
tsv
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
600
Homo sapiens
Biosample type
387
cell line
191
tissue
15
in vitro differentiated cells
7
primary cell
Organ
600
liver
459
pancreas
293
epithelium
286
heart
239
brain
213
kidney
192
connective tissue
168
vasculature
164
blood vessel
97
bone element
92
adipose tissue
83
artery
83
limb
69
blood
69
bodily fluid
47
musculature of body
38
nerve
35
eye
25
spleen
23
embryo
22
vein
20
lung
12
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
stomach
1
urinary bladder
Project
600
AMP
Genome assembly (visualization)
464
hg19
370
GRCh38
Lab
558
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
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
files.file_type!
zippedFastqFolder
month_released!
June, 2019
assay_title!
total RNA-seq
BIOSAMPLE
ASSAY
600 results
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ChIP-seq
ATAC-seq
WGBS
DNase-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
2
2
2
1
tissue
liver
145
20
3
2
1
1
1
1
1
right lobe of liver
10
1
1
2
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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