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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
569
ChIP-seq
189
total RNA-seq
23
ATAC-seq
DNase-seq
6
Hi-C
5
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
FAIRE-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
569
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
6
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
118
histone modification
117
histone
110
control
82
recombinant protein
66
narrow histone mark
58
RNA binding protein
51
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
53
August, 2017
50
November, 2018
40
May, 2022
35
August, 2021
26
October, 2019
10
July, 2019
5
December, 2019
5
January, 2019
4
March, 2020
3
February, 2021
1
December, 2018
1
February, 2020
Available data
694
bam
630
bigWig
462
fastq
447
bed narrowPeak
364
bigBed narrowPeak
174
tsv
86
tagAlign
60
bed broadPeak
60
bigBed broadPeak
8
bed bed3+
4
hic
4
tar
3
bed bedMethyl
3
bedpe bed3+
3
bigBed bedMethyl
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
805
Homo sapiens
Biosample type
401
cell line
357
tissue
32
primary cell
15
in vitro differentiated cells
Organ
938
pancreas
785
liver
675
connective tissue
505
epithelium
489
adipose tissue
323
heart
273
kidney
254
brain
225
vasculature
221
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
63
musculature of body
57
eye
41
nerve
37
embryo
24
spleen
20
lung
20
vein
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
805
AMP
Genome assembly (visualization)
635
hg19
536
GRCh38
Lab
734
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
audit script error
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_title!
DNase-seq
BIOSAMPLE
ASSAY
805 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
FAIRE-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
1
2
2
1
tissue
liver
145
167
20
1
3
1
1
1
1
right lobe of liver
10
3
1
1
2
primary cell
endothelial cell of umbilical vein
17
2
1
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
15
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