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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
489
ChIP-seq
189
total RNA-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
489
DNA binding
193
Transcription
28
DNA accessibility
5
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
305
transcription factor
95
control
86
histone modification
85
histone
82
recombinant protein
54
RNA binding protein
53
narrow histone mark
32
broad histone mark
20
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
53
August, 2017
53
November, 2018
December, 2017
40
May, 2022
35
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
March, 2020
2
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
618
bam
572
bigWig
401
fastq
391
bed narrowPeak
308
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
2
bedpe bed3+
2
hic
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
csv
1
hdf5
1
vcf
Organism
725
Homo sapiens
Biosample type
400
cell line
312
tissue
13
primary cell
Organ
941
pancreas
725
liver
585
connective tissue
494
epithelium
490
adipose tissue
390
heart
350
kidney
283
brain
235
vasculature
230
blood vessel
155
bone element
141
artery
122
limb
91
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
25
spleen
22
vein
20
lung
18
ureter
12
skeleton
8
embryo
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
725
AMP
Genome assembly (visualization)
572
hg19
480
GRCh38
Lab
654
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_title!
RRBS
biosample_type!
in vitro differentiated cells
files.file_type!
bed bed3
month_released!
December, 2017
BIOSAMPLE
ASSAY
725 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
tissue
liver
107
167
20
2
3
1
1
1
1
right lobe of liver
3
1
2
1
2
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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