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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
564
ChIP-seq
189
total RNA-seq
24
ATAC-seq
7
DNase-seq
7
WGBS
4
Hi-C
4
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
564
DNA binding
193
Transcription
31
DNA accessibility
9
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
336
transcription factor
116
control
109
histone modification
108
histone
82
recombinant protein
62
narrow histone mark
55
RNA binding protein
46
broad histone mark
15
chromatin remodeller
5
other context
5
other post-translational modification
Date released
311
November, 2017
194
May, 2020
63
December, 2017
58
November, 2018
54
August, 2017
40
May, 2022
35
August, 2021
12
January, 2019
10
July, 2019
8
December, 2018
7
October, 2019
5
December, 2019
4
March, 2020
3
February, 2021
2
June, 2019
1
February, 2020
1
October, 2017
Available data
697
bam
630
bigWig
481
fastq
447
bed narrowPeak
363
bigBed narrowPeak
175
tsv
86
tagAlign
64
bed broadPeak
64
bigBed broadPeak
14
bed bed3+
5
bed bedMethyl
5
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
808
Homo sapiens
Biosample type
393
cell line
386
tissue
15
in vitro differentiated cells
14
primary cell
Organ
944
pancreas
783
liver
684
connective tissue
519
epithelium
491
adipose tissue
372
heart
349
kidney
258
brain
186
vasculature
180
blood vessel
159
bone element
136
artery
115
limb
89
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
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
808
AMP
Genome assembly (visualization)
631
hg19
541
GRCh38
Lab
737
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:
7
missing controlled_by
Audit category:
27
inconsistent control read length
inconsistent control run_type
month_released!
May, 2019
audit.WARNING.category!
inconsistent control run_type
BIOSAMPLE
ASSAY
808 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
370
14
1
1
2
2
2
1
tissue
liver
145
167
20
2
3
1
1
1
1
1
spleen
20
1
1
2
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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