scircm 1.0.1

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sci-RegulatoryClusteringModel

Link to docs

Regulatory clustering model

The general table of how we define regulatory clusters.

Methylation	RNAseq	Proteomics	Regulation driver_1	Regulation driver_2	Regulation_Grouping1	Regulation_Grouping2	Regulation_Grouping3
Hypermethylation	DOWN	DOWN	Methylation increase (MDS)	None	MDS	MDS	MDS
Hypermethylation	UP	DOWN	mRNA increase (TPDE)	Protein decrease (TMDS)	TPDE+TMDS	TPDE+TMDS	TMDS
Hypermethylation	UP	UP	mRNA increase (TPDE)	None	TPDE	TPDE	TPDE
Hypermethylation	DOWN	UP	Methylation increase (MDS)	Protein increase (TMDE)	MDS+TMDE	TMDE	TMDE
Hypermethylation	No Change	UP	mRNA increase (TPDE)	Protein increase (TMDE)	TPDE+TMDE	TMDE	TMDE
Hypermethylation	No Change	DOWN	mRNA increase (TPDE)	Protein decrease (TMDS)	TPDE+TMDS	TMDS	TMDS
Hypermethylation	UP	No Change	mRNA increase (TPDE)	Protein decrease (TMDS)	TPDE+TMDS	TPDE+TMDS	TMDS
Hypermethylation	DOWN	No Change	Methylation increase (MDS)	Protein increase (TMDE)	MDS+TMDE	MDS+TMDE	TMDE
Hypermethylation	No Change	No Change	Methylation increase (ncRNA)	None	MDS-ncRNA	MDS_ncRNA	MDS_ncRNA
Hypomethylation	DOWN	DOWN	mRNA decrease (TPDS)	None	TPDS	TPDS	TPDS
Hypomethylation	UP	DOWN	Methylation decrease (MDE)	Protein decrease (TMDS)	MDE+TMDS	TMDS	TMDS
Hypomethylation	UP	UP	Methylation decrease (MDE)	None	MDE	MDE	MDE
Hypomethylation	DOWN	UP	mRNA decrease (TPDS)	Protein increase (TMDE)	TPDS+TMDE	TPDS+TMDE	TMDE
Hypomethylation	No Change	UP	mRNA decrease (TPDS)	Protein increase (TMDE)	TPDS+TMDE	TMDE	TMDE
Hypomethylation	No Change	DOWN	mRNA decrease (TPDS)	Protein decrease (TMDS)	TPDS+TMDS	TMDS	TMDS
Hypomethylation	UP	No Change	Methylation decrease (MDE)	Protein decrease (TMDS)	MDE+TMDS	MDE+TMDS	TMDS
Hypomethylation	DOWN	No Change	mRNA decrease (TPDS)	Protein increase (TMDE)	TPDS+TMDE	TPDS+TMDE	TMDE
Hypomethylation	No Change	No Change	Methylation decrease (ncRNA)	None	MDE+ncRNA	MDE_ncRNA	MDE_ncRNA
No Change	DOWN	UP	mRNA decrease (TPDS)	Protein increase (TMDE)	TPDS+TMDE	TPDS+TMDE	TMDE
No Change	UP	DOWN	mRNA increase (TPDE)	Protein decrease (TMDS)	TPDE+TMDS	TPDE+TMDS	TMDS
No Change	DOWN	DOWN	mRNA decrease (TPDS)	None	TPDS	TPDS	TPDS
No Change	UP	UP	mRNA increase (TPDE)	None	TPDE	TPDE	TPDE
No Change	No Change	UP	Protein increase (TMDE)	None	TMDE	TMDE	TMDE
No Change	No Change	DOWN	Protein decrease (TMDS)	None	TMDS	TMDS	TMDS
No Change	UP	No Change	mRNA increase (TPDE)	Protein decrease (TMDS)	TPDE+TMDS	TPDE+TMDS	TMDS
No Change	DOWN	No Change	mRNA decrease (TPDS)	Protein increase (TMDE)	TPDS+TMDE	TPDS+TMDE	TMDE
No Change	No Change	No Change	NoChange	NoChange	NoChange	NoChange	NoChange

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