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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
554
ChIP-seq
189
total RNA-seq
24
ATAC-seq
8
snATAC-seq
5
WGBS
3
pCHi-C
3
small RNA-seq
2
Hi-C
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
554
DNA binding
193
Transcription
33
DNA accessibility
7
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
345
transcription factor
114
control
90
histone modification
89
histone
82
recombinant protein
64
RNA binding protein
55
narrow histone mark
34
broad histone mark
29
chromatin remodeller
1
other context
1
other post-translational modification
Date released
257
November, 2017
194
May, 2020
65
November, 2018
63
December, 2017
54
August, 2017
40
May, 2022
34
August, 2021
28
December, 2018
23
January, 2019
10
July, 2019
8
January, 2021
7
October, 2019
5
December, 2019
3
February, 2021
2
March, 2020
1
February, 2020
1
January, 2018
Available data
741
bam
677
bigWig
525
fastq
495
bed narrowPeak
412
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
795
Homo sapiens
Biosample type
403
cell line
357
tissue
20
primary cell
15
in vitro differentiated cells
Organ
932
pancreas
726
liver
675
connective tissue
496
epithelium
489
adipose tissue
360
heart
275
kidney
248
brain
216
vasculature
214
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
61
musculature of body
57
eye
41
nerve
37
embryo
24
spleen
20
lung
16
skeleton
16
vein
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
787
AMP
8
T1D
Genome assembly (visualization)
615
hg19
536
GRCh38
Lab
717
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
14
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bigBed broadPeak
hic
BIOSAMPLE
ASSAY
795 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
320
14
1
1
2
1
2
1
GM12878
60
1
tissue
liver
145
167
20
3
1
1
1
1
right lobe of liver
10
3
1
1
2
1
primary cell
hepatocyte
4
5
1
peripheral blood mononuclear cell
8
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
15
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