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

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Showing element 1 to 50 of 77072 in total

description	Filtered	Value Type	green	network_comparison	red	Interaction Map	Network Comparison Type	Rank
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	0	Measured	851.77	1.31954	645.504	Low confidence	Divided	131
				206.266			Subtracted	273
			934.348	2.79409	334.401	High confidence	Divided	37
				599.947			Subtracted	45
		Ranked	13590.3	1.02915	13205.3	Low confidence	Divided	629
				385			Subtracted	600
			13895.8	1.09822	15260.6	High confidence	Divided	242
				1364.8			Subtracted	172
		Squared	1034.13	10.2338	101.05		Divided	37
				933.08			Subtracted	131
			1268.51	1.63527	775.72	Low confidence	Divided	146
				492.79			Subtracted	319
		Rooted	17.0804	0.7824	16.298			634
				1.04801			Divided	537
			18.0183	1.5213	11.844	High confidence		53
				6.1743			Subtracted	69
	1	Measured	2765.82	1.6231	4489.19		Divided	60
				1723.37			Subtracted	164
			7900.54	1.00597	7853.62	Low confidence	Divided	4914
				46.92			Subtracted	4909
		Ranked	201.5	1.01062	199.383		Divided	4130
				2.117			Subtracted	4141
			245.247	1.32082	185.678	High confidence	Divided	18
				59.569			Subtracted	54
		Squared	6768.05	1.31131	8875.01		Divided	245
				2106.96			Subtracted	1962
			41688.5	1.04654	43628.5	Low confidence	Divided	1119
				1940			Subtracted	1423
		Rooted	47.2654	1.35128	63.8686	High confidence	Divided	64
				16.6032			Subtracted	67
			72.6287	0.6791	71.9496	Low confidence		4919
				1.00944			Divided	4914
1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]		Measured	8585.64	1.03993	8255.95			885
				329.69			Subtracted	780
			8630.06	1.14278	7551.8	High confidence	Divided	509
				1078.26			Subtracted	310
		Ranked	181.041	1.03148	186.741		Divided	1038
				5.7			Subtracted	1120
			194.038	1.02218	198.342	Low confidence	Divided	1328
				4.304			Subtracted	1408
		Squared	39351.7	1.27733	30807.7	High confidence	Divided	295
				8544			Subtracted	274
			45736	1.01928	46617.7	Low confidence	Divided	4562
				881.7			Subtracted	4514
		Rooted	76.3375	1.0386	73.5001		Divided	1092
				2.8374			Subtracted	980
			79.1513	1.0645	74.3557	High confidence	Divided	805
				4.7956			Subtracted	610
1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]		Measured	8587.03	1.04001	8256.68	Low confidence	Divided	880
				330.35			Subtracted	773

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.