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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
570
ChIP-seq
201
total RNA-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
GRO-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
570
DNA binding
205
Transcription
28
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
341
transcription factor
113
control
113
histone modification
112
histone
82
recombinant protein
66
narrow histone mark
58
RNA binding protein
46
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
72
December, 2017
54
August, 2017
53
November, 2018
43
August, 2021
40
May, 2022
13
February, 2018
10
July, 2019
6
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
1
January, 2018
Available data
710
bam
647
bigWig
488
fastq
452
bed narrowPeak
358
bigBed narrowPeak
186
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
16
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
821
Homo sapiens
Biosample type
409
cell line
361
tissue
38
in vitro differentiated cells
13
primary cell
Organ
865
pancreas
790
liver
665
connective tissue
490
adipose tissue
433
epithelium
387
heart
331
kidney
283
brain
235
vasculature
230
blood vessel
141
artery
121
limb
87
musculature of body
75
bone element
69
blood
69
bodily fluid
61
eye
43
nerve
31
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
Project
821
AMP
Genome assembly (visualization)
649
hg19
555
GRCh38
1
hg18
Lab
750
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
inconsistent ontology term
1
inconsistent replicate
Audit category:
14
missing controlled_by
Audit category:
29
inconsistent control read length
8
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
821 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
GRO-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
2
1
H1-hESC
8
tissue
liver
145
167
20
2
3
1
1
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
pancreatic endoderm
18
4
1
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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