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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
494
ChIP-seq
46
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
494
DNA binding
50
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
330
transcription factor
85
control
82
recombinant protein
76
histone modification
75
histone
55
RNA binding protein
42
broad histone mark
33
narrow histone mark
15
chromatin remodeller
2
other context
2
other post-translational modification
Date released
311
November, 2017
May, 2020
63
December, 2017
54
August, 2017
49
November, 2018
40
May, 2022
35
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
480
bam
457
fastq
444
bigWig
406
bed narrowPeak
350
bigBed narrowPeak
63
bed broadPeak
63
bigBed broadPeak
36
tagAlign
30
tsv
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
589
Homo sapiens
Biosample type
392
cell line
168
tissue
15
in vitro differentiated cells
14
primary cell
Organ
946
pancreas
684
connective tissue
589
liver
524
epithelium
491
adipose tissue
393
heart
354
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
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
589
AMP
Genome assembly (visualization)
447
hg19
363
GRCh38
Lab
518
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
audit.WARNING.category!
inconsistent control run_type
files.file_type!
ibed
month_released!
May, 2020
BIOSAMPLE
ASSAY
589 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
370
14
1
1
2
2
1
1
tissue
liver
95
24
20
2
3
1
1
1
1
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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