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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 1101 to 1150 of 1892 in total

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

Rank	description	Value Type
3031	speckle-type poz protein. [swissprot;acc:o43791]	Measured
		Ranked
		Squared
		Rooted
3032	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	Measured
		Ranked
		Squared
		Rooted
3033	glycerol-3-phosphate acyltransferase, mitochondrial precursor (ec 2.3.1.15) (gpat). [swissprot;acc:q9hcl2]	Measured
		Ranked
		Squared
		Rooted
3034	postsynaptic protein cript; hspc139 protein. [refseq;acc:nm_014171]	Measured
		Ranked
		Squared
		Rooted
3035	transforming growth factor beta 3 precursor (tgf-beta 3). [swissprot;acc:p10600]	Measured
		Ranked
		Squared
		Rooted
3036	placenta growth factor precursor (plgf). [swissprot;acc:p49763]	Measured
		Ranked
		Squared
		Rooted
3037	skd1 protein (vacuolar sorting protein 4b). [swissprot;acc:o75351]	Measured
		Ranked
		Squared
		Rooted
3038	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	Measured
		Ranked
		Squared
		Rooted
3039	set protein (hla-dr associated protein ii) (phapii) (phosphatase 2a inhibitor i2pp2a). [swissprot;acc:q01105]	Measured
		Ranked
		Squared
		Rooted
3040	connective tissue growth factor precursor (hypertrophic chondrocyte- specific protein 24). [swissprot;acc:p29279]	Measured
		Ranked
		Squared
		Rooted
3041	transthyretin precursor (prealbumin) (tbpa) (ttr) (attr). [swissprot;acc:p02766]	Measured
		Ranked
		Squared
		Rooted
3042	orphan nuclear receptor nr5a2 (alpha-1-fetoprotein transcription factor) (hepatocytic transcription factor) (b1-binding factor) (hb1f) (cyp7a promoter binding factor). [swissprot;acc:o00482]	Measured
		Ranked
		Squared
		Rooted
3043	transcription termination factor, rna polymerase ii; lodestar protein. [refseq;acc:nm_003594]	Measured
		Ranked

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
- 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.