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 1 to 50 of 77072 in total

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description	green	Value Type	network_comparison	red	Interaction Map	Rank	Network Comparison Type
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	17.0804	Rooted	0.7824	16.298	Low confidence	634	Subtracted
			1.04801			537	Divided
	18.0183		1.5213	11.844	High confidence	53
			6.1743			69	Subtracted
	851.77	Measured	1.31954	645.504	Low confidence	131	Divided
			206.266			273	Subtracted
	934.348		2.79409	334.401	High confidence	37	Divided
			599.947			45	Subtracted
	1034.13	Squared	10.2338	101.05		37	Divided
			933.08			131	Subtracted
	1268.51		1.63527	775.72	Low confidence	146	Divided
			492.79			319	Subtracted
	13590.3	Ranked	1.02915	13205.3		629	Divided
			385			600	Subtracted
	13895.8		1.09822	15260.6	High confidence	242	Divided
			1364.8			172	Subtracted
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829]	39.5126	Rooted	0.4144	39.0982	Low confidence	726
			1.0106			768	Divided
	4869.42	Measured	1.00902	4825.89		778
			43.53			627	Subtracted
	10050.9	Ranked	1.02953	10347.7			Divided
			296.8			641	Subtracted
	40451	Squared	1.00447	40270.8		815	Divided
			180.2			536	Subtracted
25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	0.344399		44.0239	44.3683	High confidence	336
			128.828			26	Divided
	3.80565	Rooted	3.62106	13.7805
			9.97485			28	Subtracted
	9.42485		1.20585	11.365	Low confidence	131	Divided
			1.94015			376	Subtracted
	26.1599	Measured	11.6763	305.45	High confidence	19	Divided
			279.29			115	Subtracted
	181.734		1.22585	222.779	Low confidence	171	Divided
			41.045			635	Subtracted
	296.481	Squared	1.03806	307.765		697	Divided
			11.284			749	Subtracted
	14695.2	Ranked	1.08587	13533.1		384	Divided
			1162.1			220	Subtracted
	18499.2		1.42943	12941.7	High confidence	47	Divided
			5557.5			28	Subtracted
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	23.2445	Rooted	0.1345	23.11	Low confidence	797
			1.00582			793	Divided
	32.0298		1.04188	30.7424	High confidence	370
			1.2874			335	Subtracted
	1609.88	Measured	1.01017	1593.68	Low confidence	771	Divided
			16.2			762	Subtracted
	2642.79		1.01545	2683.61	High confidence	451	Divided
			40.82			380	Subtracted
	6490.54	Squared	1.01738	6603.33	Low confidence	763	Divided
			112.79			584	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.