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

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Showing element 101 to 150 of 77072 in total

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description	green	Value Type	network_comparison	red	Interaction Map	Rank	Network Comparison Type
3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	11352.1	Ranked	1.0588	10721.7	Low confidence	501	Divided
			630.4			397	Subtracted
	18218.3	Squared	1.0074	18353.1	High confidence	477	Divided
			134.8			262	Subtracted
3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110]	24.5318	Rooted	1.0647	26.1189	Low confidence	461	Divided
			1.5871			446	Subtracted
	26.8141		1.04688	28.0711	High confidence	357	Divided
			1.257			339	Subtracted
	1500.63	Measured	1.07746	1616.87	Low confidence	459	Divided
			116.24			406	Subtracted
	1721.76		1.06708	1837.26	High confidence	346	Divided
			115.5			264	Subtracted
	5250.39	Squared	1.05066	5516.4	Low confidence	655	Divided
			266.01			397	Subtracted
	6794.39		1.02587	6970.13	High confidence	455	Divided
			175.74			239	Subtracted
	10243.1	Ranked	1.00854	10156.4		478	Divided
			86.7			473	Subtracted
	10984.2		1.03221	10641.4	Low confidence	614	Divided
			342.8				Subtracted
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]	0.145878	Squared	0.037239	0.108639	High confidence	492
			1.34278			232	Divided
	2.18581	Rooted	1.96964	4.30525		36
			2.11944			267	Subtracted
	14.3333	Measured	1.3721	19.6667		121	Divided
			5.3334			460	Subtracted
	33.079	Rooted	0.7323	32.3467	Low confidence	643
			1.02264			680	Divided
	3822.12	Measured	1.00257	3831.93		815
			9.81			789	Subtracted
	10788.6	Ranked	1.0617	11454.3		481	Divided
			665.7			384	Subtracted
	19704.7		1.04536	18849.7	High confidence	369	Divided
			855			277	Subtracted
	32991.9	Squared	1.02063	33672.5	Low confidence	740	Divided
			680.6			268	Subtracted
40s ribosomal protein s10. [swissprot;acc:p46783]	17.5674	Rooted	1.07201	18.8324		436	Divided
			1.265			508	Subtracted
	1135.73	Measured	1.05788	1201.47		513	Divided
			65.74			537	Subtracted
	5302.97	Squared	1.27926	6783.9		219	Divided
			1480.93			157	Subtracted
	13169.5	Ranked	1.06043	12419		488	Divided
			750.5			357	Subtracted
40s ribosomal protein s12. [swissprot;acc:p25398]	24.3289	Rooted	0.9646	23.3643		593
			1.04129			567	Divided
	2194.28	Measured	1.025	2140.77		661
			53.51			575	Subtracted
	11494.2	Ranked	1.04588	12021.5		560	Divided
			527.3			556	Subtracted

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.