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

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Showing element 851 to 900 of 38536 in total

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

description	Interaction Map	Value Type	Rank
interleukin enhancer binding factor 2; nuclear factor of activated t-cells, 45-kda. [refseq;acc:nm_004515]	High confidence	Rooted	2930
jerky protein homolog like (hhmjg). [swissprot;acc:q9y4a0]		Measured	2775
		Ranked
		Squared
		Rooted
	Low confidence	Measured	5020
		Ranked	5019
		Squared	5020
		Rooted
kiaa1194. [refseq;acc:nm_015455]	High confidence	Measured	3061
		Ranked
		Squared
		Rooted
lactamase, beta 2. [refseq;acc:nm_016027]		Measured	2914
		Ranked
		Squared
		Rooted
langerhans cell specific c-type lectin. [refseq;acc:nm_015717]		Measured	3046
		Ranked
		Squared
		Rooted
	Low confidence	Measured	5045
		Ranked	5044
		Squared	5045
		Rooted
late endosomal/lysosomal mp1 interacting protein (p14) (hspc003). [swissprot;acc:q9y2q5]	High confidence	Measured	3044
		Ranked
		Squared
		Rooted
	Low confidence	Measured	5044
		Ranked	5043
		Squared	5044
		Rooted
leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]	High confidence	Measured	3017
		Ranked
		Squared
		Rooted
	Low confidence	Measured	5041
		Ranked	5040
		Squared	5041
		Rooted
leucine rich repeat (in flii) interacting protein 2. [refseq;acc:nm_006309]	High confidence	Measured	3153
		Ranked
		Squared
		Rooted
	Low confidence	Measured	5057
		Ranked
		Squared
		Rooted
likely ortholog of mouse c-type (calcium dependent, carbohydrate recognition domain) lectin, superfamily member 13; c-type lectin 13; likely ortholog of rat kupffer cell c-type lectin receptor. [refseq;acc:nm_173535]	High confidence	Measured	2898

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.