MK5 Microarray Data

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

Rank	Gene	description	Hugo	Network Comparison Type	Value Type	Interaction Map	red	Filtered	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1730 to 1779 of 1892 in total

Network Comparison Type  : Subtracted
Interaction Map  : High confidence
red  : 0
Filtered  : 1
green  : 0
network_comparison  : 0

Rank	description	Hugo	Value Type
3188	connective tissue growth factor-like protein precursor (ctgf-l) (wnt1 inducible signaling pathway protein 2) (wisp-2) (connective tissue growth factor-related protein 58). [swissprot;acc:o76076]	WISP2	Ranked
			Squared
			Rooted
3189	ring finger protein 4. [swissprot;acc:p78317]	RNF4	Measured
			Ranked
			Squared
			Rooted
3190	myotubularin-related protein 1 (ec 3.1.3.-). [swissprot;acc:q13613]	MTMR1	Measured
			Ranked
			Squared
			Rooted
3191	amyloid beta precursor protein-binding protein 2; amyloid beta precursor protein (cytoplasmic tail)-binding protein 2; protein interacting with app tail 1. [refseq;acc:nm_006380]	APPBP2	Measured
			Ranked
			Squared
			Rooted
3192	ubiquitin carboxyl-terminal hydrolase 13 (ec 3.1.2.15) (ubiquitin thiolesterase 13) (ubiquitin-specific processing protease 13) (deubiquitinating enzyme 13) (isopeptidase t-3) (isot-3). [swissprot;acc:q92995]	USP13	Measured
			Ranked
			Squared
			Rooted
3193	rab gdp dissociation inhibitor beta (rab gdi beta) (gdi-2). [swissprot;acc:p50395]	GDI2	Measured
			Ranked
			Squared
			Rooted
3194	muts protein homolog 4. [swissprot;acc:o15457]	MSH4	Measured
			Ranked
			Squared
			Rooted
3195	integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106]	ITGB3	Measured
			Ranked
			Squared
			Rooted
3196	homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein (methyl methanesulfonate (mmf)-inducible fragment protein 1). [swissprot;acc:q15011]	HERPUD1	Measured
			Ranked
			Squared
			Rooted
3197	cisplatin resistance related protein crr9p. [refseq;acc:nm_030782]	CLPTM1L	Measured
			Ranked
			Squared
			Rooted
3198	rp42 homolog; squamous cell carcinoma-related oncogene. [refseq;acc:nm_020640]	DCUN1D1	Measured
			Ranked
			Squared
			Rooted
3199	complement component c6 precursor. [swissprot;acc:p13671]	C6	Measured
			Ranked
			Squared
			Rooted
3200	endosome-associated fyve-domain protein. [refseq;acc:nm_014733]	ZFYVE16	Measured
			Ranked
			Squared

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the HGNC identifier if it exists
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.