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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
454
ChIP-seq
198
total RNA-seq
22
ATAC-seq
5
DNase-seq
5
WGBS
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
GRO-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
454
DNA binding
202
Transcription
27
DNA accessibility
6
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
339
transcription factor
111
control
98
histone modification
histone
82
recombinant protein
59
narrow histone mark
56
RNA binding protein
38
broad histone mark
22
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
167
May, 2020
53
November, 2018
48
December, 2017
40
May, 2022
36
August, 2021
22
August, 2017
8
July, 2019
7
February, 2018
5
January, 2019
3
February, 2021
3
March, 2020
2
May, 2021
1
December, 2018
1
February, 2020
1
January, 2018
1
June, 2019
1
October, 2019
Available data
613
bam
549
bigWig
431
fastq
360
bed narrowPeak
320
bigBed narrowPeak
183
tsv
48
bed broadPeak
48
bigBed broadPeak
27
tagAlign
9
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
vcf
Organism
699
Homo sapiens
Biosample type
391
cell line
292
tissue
15
in vitro differentiated cells
1
primary cell
Organ
795
pancreas
689
liver
606
connective tissue
459
adipose tissue
epithelium
324
kidney
296
heart
165
vasculature
160
blood vessel
159
bone element
121
artery
99
brain
73
limb
68
blood
68
bodily fluid
63
musculature of body
58
eye
25
embryo
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
7
vein
2
intestine
2
pericardium
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
699
AMP
Genome assembly (visualization)
550
hg19
471
GRCh38
1
hg18
Lab
631
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
27
inconsistent control
2
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
16
inconsistent control read length
8
inconsistent control run_type
organ_slims!
epithelium
organ_slims!!
epithelium
target.investigated_as!
histone
BIOSAMPLE
ASSAY
699 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
STARR-seq
GRO-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
360
14
1
1
2
2
2
1
H1-hESC
8
tissue
liver
81
167
20
2
3
1
1
1
1
1
right lobe of liver
5
3
1
2
1
2
in vitro differentiated cells
pancreatic endoderm
8
4
1
mesodermal cell (lineage marker-negative)
1
mesodermal cell (pacemaker intermediate)
1
primary cell
hepatic stellate cell
1
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