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

Results: HTML CSV LaTeX

Showing element 1125 to 1174 of 2060 in total

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

Rank	description	Hugo	Value Type
3037	skd1 protein (vacuolar sorting protein 4b). [swissprot;acc:o75351]	VPS4B	Measured
			Ranked
			Squared
			Rooted
3038	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	no value	Measured
			Ranked
			Squared
			Rooted
3039	set protein (hla-dr associated protein ii) (phapii) (phosphatase 2a inhibitor i2pp2a). [swissprot;acc:q01105]	SET	Measured
			Ranked
			Squared
			Rooted
3040	connective tissue growth factor precursor (hypertrophic chondrocyte- specific protein 24). [swissprot;acc:p29279]	CTGF	Measured
			Ranked
			Squared
			Rooted
3041	transthyretin precursor (prealbumin) (tbpa) (ttr) (attr). [swissprot;acc:p02766]	TTR	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]	NR5A2	Measured
			Ranked
			Squared
			Rooted
3043	transcription termination factor, rna polymerase ii; lodestar protein. [refseq;acc:nm_003594]	TTF2	Measured
			Ranked
			Squared
			Rooted
3044	late endosomal/lysosomal mp1 interacting protein (p14) (hspc003). [swissprot;acc:q9y2q5]	no value	Measured
			Ranked
			Squared
			Rooted
3045	dna mismatch repair protein msh6 (muts-alpha 160 kda subunit) (g/t mismatch binding protein) (gtbp) (gtmbp) (p160). [swissprot;acc:p52701]	MSH6	Measured
			Ranked
			Squared
			Rooted
3046	langerhans cell specific c-type lectin. [refseq;acc:nm_015717]	CD207	Measured
			Ranked
			Squared
			Rooted
3047	origin recognition complex subunit 2. [swissprot;acc:q13416]	ORC2L	Measured
			Ranked
			Squared
			Rooted
3048	serine/threonine protein kinase 25 (ec 2.7.1.37) (sterile 20/oxidant stress-response kinase 1) (ste20/oxidant stress response kinase-1) (sok-1) (ste20-like kinase). [swissprot;acc:o00506]	STK25	Measured
			Ranked
			Squared
			Rooted
3049	zinc transporter 3 (znt-3). [swissprot;acc:q99726]	SLC30A3	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
- 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.