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

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Showing element 601 to 650 of 38536 in total

green  : 0.00001
network_comparison  : 1
Network Comparison Type  : Divided
red  : 0.00001

description	Value Type	Interaction Map	Filtered	Rank
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]	Measured	Low confidence	0	843
			1	5055
	Ranked		0	843
			1	5055
	Squared		0	843
			1	5055
	Rooted		0	843
			1	5055
gamma-interferon inducible lysosomal thiol reductase precursor (gamma-interferon-inducible protein ip-30). [swissprot;acc:p13284]	Measured	High confidence		3101
	Ranked
	Squared
	Rooted
gdp-fucose protein o-fucosyltransferase 1 precursor (ec 2.4.1.221) (peptide o-fucosyltransferase) (o-fuct-1). [swissprot;acc:q9h488]	Measured			3125
	Ranked
	Squared
	Rooted
geranylgeranyl transferase type ii beta subunit (ec 2.5.1.-) (rab geranylgeranyltransferase beta subunit) (rab geranyl- geranyltransferase beta subunit) (rab gg transferase beta) (rab ggtase beta). [swissprot;acc:p53611]	Measured			2963
	Ranked
	Squared
	Rooted
glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]	Measured			2953
	Ranked
	Squared
	Rooted
glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]	Measured			3104
	Ranked
	Squared
	Rooted
glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]	Measured			3007
	Ranked
	Squared
	Rooted
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	Measured			3058
	Ranked
	Squared
	Rooted
glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	Measured			2861
	Ranked
	Squared
	Rooted
glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	Measured			2957
	Ranked
	Squared
	Rooted
glycerol-3-phosphate acyltransferase, mitochondrial precursor (ec 2.3.1.15) (gpat). [swissprot;acc:q9hcl2]	Measured			3033
	Ranked
	Squared
	Rooted
glycine receptor alpha-1 chain precursor (glycine receptor 48 kda subunit) (strychnine binding subunit). [swissprot;acc:p23415]	Measured			2919
	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.