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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
483
ChIP-seq
189
total RNA-seq
23
ATAC-seq
8
DNase-seq
6
Hi-C
5
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
FAIRE-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
483
DNA binding
193
Transcription
32
DNA accessibility
7
DNA methylation
6
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
82
control
82
recombinant protein
60
histone modification
59
histone
58
RNA binding protein
33
broad histone mark
26
narrow histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
303
November, 2017
144
May, 2020
63
December, 2017
53
November, 2018
40
May, 2022
34
August, 2017
31
August, 2021
28
October, 2019
10
July, 2019
5
December, 2019
5
January, 2019
4
March, 2020
3
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
701
bam
637
bigWig
465
fastq
454
bed narrowPeak
371
bigBed narrowPeak
174
tsv
tagAlign
67
bed broadPeak
67
bigBed broadPeak
15
bed bed3+
4
hic
4
tar
3
bed bedMethyl
3
bedpe bed3+
3
bigBed bedMethyl
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
727
Homo sapiens
Biosample type
389
cell line
291
tissue
32
primary cell
15
in vitro differentiated cells
Organ
927
pancreas
705
liver
662
connective tissue
517
epithelium
483
adipose tissue
354
kidney
347
heart
230
vasculature
224
blood vessel
168
brain
159
bone element
135
artery
122
limb
81
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
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
727
AMP
Genome assembly (visualization)
600
hg19
512
GRCh38
Lab
656
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
audit script error
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
16
inconsistent control read length
8
inconsistent control run_type
files.file_type!
tagAlign
BIOSAMPLE
ASSAY
727 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
FAIRE-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
366
14
1
2
1
2
2
1
tissue
liver
75
167
20
2
1
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
primary cell
endothelial cell of umbilical vein
17
2
2
1
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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