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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
528
ChIP-seq
189
total RNA-seq
23
ATAC-seq
5
WGBS
3
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
528
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
331
transcription factor
106
control
88
histone modification
87
histone
82
recombinant protein
55
RNA binding protein
53
narrow histone mark
34
broad histone mark
22
chromatin remodeller
2
other context
2
other post-translational modification
Date released
312
November, 2017
194
May, 2020
51
August, 2017
50
November, 2018
48
December, 2017
40
May, 2022
32
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
March, 2020
2
February, 2021
1
December, 2018
1
February, 2020
Available data
666
bam
608
bigWig
450
fastq
427
bed narrowPeak
344
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
760
Homo sapiens
Biosample type
397
cell line
355
tissue
in vitro differentiated cells
8
primary cell
Organ
914
pancreas
760
liver
573
connective tissue
484
adipose tissue
478
epithelium
362
heart
276
kidney
251
brain
222
vasculature
218
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
62
musculature of body
57
eye
41
nerve
24
spleen
20
lung
19
vein
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
760
AMP
Genome assembly (visualization)
595
hg19
506
GRCh38
Lab
689
AMP-T2D consortium
40
Karen Mohlke, UNC
31
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
files.file_type!
bed bed3+
tar
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
760 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
375
14
1
1
2
2
1
1
tissue
liver
142
167
20
3
1
1
1
1
1
right lobe of liver
10
3
1
1
2
1
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
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