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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
529
ChIP-seq
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
529
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
4
Transcription
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
60
December, 2017
54
August, 2017
50
May, 2020
48
November, 2018
26
August, 2021
20
May, 2022
6
July, 2019
6
October, 2019
2
February, 2021
2
June, 2019
1
December, 2018
1
March, 2020
Available data
499
bam
440
bigWig
437
fastq
418
bed narrowPeak
335
bigBed narrowPeak
86
tagAlign
59
bed broadPeak
59
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
3
tsv
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
576
Homo sapiens
Biosample type
365
cell line
188
tissue
14
in vitro differentiated cells
9
primary cell
Organ
576
liver
542
pancreas
392
epithelium
318
heart
292
kidney
267
brain
203
connective tissue
174
vasculature
168
blood vessel
115
limb
96
bone element
91
adipose tissue
89
musculature of body
85
artery
59
blood
59
bodily fluid
38
eye
38
nerve
24
spleen
23
embryo
22
vein
19
lung
18
ureter
12
skeleton
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
Project
576
AMP
Genome assembly (visualization)
442
hg19
351
GRCh38
Lab
534
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
Audit category:
25
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
16
inconsistent control read length
assay_title!
pCHi-C
total RNA-seq
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
576 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
358
1
1
2
2
1
tissue
liver
143
20
2
3
1
1
1
1
right lobe of liver
10
1
2
1
2
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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