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

Results: HTML CSV LaTeX

Showing element 818 to 867 of 1942 in total

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

Rank	description	Value Type
2947	small edrk-rich factor 2. [refseq;acc:nm_005770]	Rooted
2948	transcription factor 12 (transcription factor htf-4) (e-box-binding protein) (dna-binding protein htf4). [swissprot;acc:q99081]	Measured
		Ranked
		Squared
		Rooted
2949	microfibrillar-associated protein 1. [swissprot;acc:p55081]	Measured
		Ranked
		Squared
		Rooted
2950	bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]	Measured
		Ranked
		Squared
		Rooted
2951	integrin beta-7 precursor. [swissprot;acc:p26010]	Measured
		Ranked
		Squared
		Rooted
2952	serine/threonine-protein kinase receptor r3 precursor (ec 2.7.1.37) (skr3) (activin receptor-like kinase 1) (alk-1) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:p37023]	Measured
		Ranked
		Squared
		Rooted
2953	glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]	Measured
		Ranked
		Squared
		Rooted
2954	nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795]	Measured
		Ranked
		Squared
		Rooted
2955	fibrillin 2 precursor. [swissprot;acc:p35556]	Measured
		Ranked
		Squared
		Rooted
2956	protein transport protein sec24b (sec24-related protein b). [swissprot;acc:o95487]	Measured
		Ranked
		Squared
		Rooted
2957	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	Measured
		Ranked
		Squared
		Rooted
2958	ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]	Measured
		Ranked
		Squared
		Rooted
2959	60s ribosomal protein l37a. [swissprot;acc:p12751]	Measured
		Ranked
		Squared
		Rooted
2960	aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]	Measured

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.