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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
504
ChIP-seq
189
total RNA-seq
22
ATAC-seq
5
DNase-seq
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
STARR-seq
2
WGBS
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
504
DNA binding
193
Transcription
27
DNA accessibility
4
3D chromatin structure
3
DNA methylation
1
DNA sequencing
Target of assay
334
transcription factor
97
control
82
recombinant protein
70
histone
70
histone modification
58
RNA binding protein
47
narrow histone mark
23
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
August, 2017
53
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
655
bam
604
bigWig
437
fastq
423
bed narrowPeak
352
bigBed narrowPeak
174
tsv
66
tagAlign
63
bed broadPeak
63
bigBed broadPeak
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
737
Homo sapiens
Biosample type
401
cell line
307
tissue
15
in vitro differentiated cells
14
primary cell
Organ
758
pancreas
737
liver
559
connective tissue
495
epithelium
434
adipose tissue
393
heart
354
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
70
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
737
AMP
Genome assembly (visualization)
605
hg19
512
GRCh38
Lab
666
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:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
lab.title!
Anna Gloyn, Oxford
month_released!
August, 2017
BIOSAMPLE
ASSAY
737 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
STARR-seq
WGBS
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
tissue
liver
97
167
20
2
1
1
1
1
right lobe of liver
10
3
1
2
1
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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