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

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Showing element 1 to 50 of 77072 in total

description	Value Type	Filtered	green	red	network_comparison	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]	Measured	0	851.77	645.504	1.31954	Low confidence	Divided	131
					206.266		Subtracted	273
			934.348	334.401	2.79409	High confidence	Divided	37
					599.947		Subtracted	45
		1	2765.82	4489.19	1.6231		Divided	60
					1723.37		Subtracted	164
			7900.54	7853.62	1.00597	Low confidence	Divided	4914
					46.92		Subtracted	4909
	Ranked	0	13590.3	13205.3	1.02915		Divided	629
					385		Subtracted	600
			13895.8	15260.6	1.09822	High confidence	Divided	242
					1364.8		Subtracted	172
		1	201.5	199.383	1.01062	Low confidence	Divided	4130
					2.117		Subtracted	4141
			245.247	185.678	1.32082	High confidence	Divided	18
					59.569		Subtracted	54
	Squared	0	1034.13	101.05	10.2338		Divided	37
					933.08		Subtracted	131
			1268.51	775.72	1.63527	Low confidence	Divided	146
					492.79		Subtracted	319
		1	6768.05	8875.01	1.31131	High confidence	Divided	245
					2106.96		Subtracted	1962
			41688.5	43628.5	1.04654	Low confidence	Divided	1119
					1940		Subtracted	1423
	Rooted	0	17.0804	16.298	0.7824			634
					1.04801		Divided	537
			18.0183	11.844	1.5213	High confidence		53
					6.1743		Subtracted	69
		1	47.2654	63.8686	1.35128		Divided	64
					16.6032		Subtracted	67
			72.6287	71.9496	0.6791	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	8255.95	1.03993			885
					329.69		Subtracted	780
			8630.06	7551.8	1.14278	High confidence	Divided	509
					1078.26		Subtracted	310
	Ranked		181.041	186.741	1.03148		Divided	1038
					5.7		Subtracted	1120
			194.038	198.342	1.02218	Low confidence	Divided	1328
					4.304		Subtracted	1408
	Squared		39351.7	30807.7	1.27733	High confidence	Divided	295
					8544		Subtracted	274
			45736	46617.7	1.01928	Low confidence	Divided	4562
					881.7		Subtracted	4514
	Rooted		76.3375	73.5001	1.0386		Divided	1092
					2.8374		Subtracted	980
			79.1513	74.3557	1.0645	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	8256.68	1.04001	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.