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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
492
ChIP-seq
185
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
WGBS
3
Hi-C
3
pCHi-C
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
492
DNA binding
186
Transcription
29
DNA accessibility
5
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
308
November, 2017
167
May, 2020
56
December, 2017
53
November, 2018
41
August, 2017
40
May, 2022
31
August, 2021
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
624
bam
562
bigWig
446
fastq
390
bed narrowPeak
344
bigBed narrowPeak
167
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
vcf
Organism
721
Homo sapiens
Biosample type
392
cell line
309
tissue
10
in vitro differentiated cells
10
primary cell
Organ
867
pancreas
721
liver
633
connective tissue
467
adipose tissue
462
epithelium
328
heart
328
kidney
198
vasculature
194
blood vessel
159
bone element
151
brain
132
artery
102
limb
73
musculature of body
blood
68
bodily fluid
57
eye
35
nerve
29
embryo
23
spleen
20
lung
18
ureter
16
skeleton
16
vein
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
721
AMP
Genome assembly (visualization)
564
hg19
483
GRCh38
Lab
652
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
organ_slims!
blood
target.investigated_as!
narrow histone mark
month_released!
July, 2019
BIOSAMPLE
ASSAY
721 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
1
2
2
2
1
tissue
liver
103
165
20
2
3
1
1
1
1
right lobe of liver
8
1
1
2
in vitro differentiated cells
hepatocyte
10
primary cell
hepatocyte
2
5
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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