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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 101 to 150 of 2158 in total

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

Rank	description	Value Type
2756	3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	Squared
		Rooted
2757	nucleosome assembly protein 1-like 1 (nap-1 related protein). [swissprot;acc:p55209]	Measured
		Ranked
		Squared
		Rooted
2758	nucleosome assembly protein 1-like 2 (brain-specific protein, x- linked). [swissprot;acc:q9ulw6]	Measured
		Ranked
		Squared
		Rooted
2759	retinoic acid receptor rxr-alpha. [swissprot;acc:p19793]	Measured
		Ranked
		Squared
		Rooted
2760	t-cell acute lymphocytic leukemia-2 protein (tal-2 protein). [swissprot;acc:q16559]	Measured
		Ranked
		Squared
		Rooted
2761	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	Measured
		Ranked
		Squared
		Rooted
2762	developmentally regulated gtp-binding protein 1 (drg 1). [swissprot;acc:q9y295]	Measured
		Ranked
		Squared
		Rooted
2763	ring finger protein 3. [refseq;acc:nm_006315]	Measured
		Ranked
		Squared
		Rooted
2764	ras-related protein rab-11b (gtp-binding protein ypt3). [swissprot;acc:q15907]	Measured
		Ranked
		Squared
		Rooted
2765	histone h2a.e (h2a/e). [swissprot;acc:q99878]	Measured
		Ranked
		Squared
		Rooted
2766	ss18-like protein 1 (syt homolog-1). [swissprot;acc:o75177]	Measured
		Ranked
		Squared
		Rooted
2767	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]	Measured
		Ranked
		Squared
		Rooted
2768	histone h2a.x (h2a/x). [swissprot;acc:p16104]	Measured
		Ranked
		Squared
		Rooted

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.