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

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Showing element 1 to 50 of 77072 in total

description	Filtered	green	red	Rank	Value Type	network_comparison	Interaction Map	Network Comparison Type
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	0	17.0804	16.298	537	Rooted	1.04801	Low confidence	Divided
				634		0.7824		Subtracted
		18.0183	11.844	53		1.5213	High confidence	Divided
				69		6.1743		Subtracted
		851.77	645.504	131	Measured	1.31954	Low confidence	Divided
				273		206.266		Subtracted
		934.348	334.401	37		2.79409	High confidence	Divided
				45		599.947		Subtracted
		1034.13	101.05	37	Squared	10.2338		Divided
				131		933.08		Subtracted
		1268.51	775.72	146		1.63527	Low confidence	Divided
				319		492.79		Subtracted
		13590.3	13205.3	600	Ranked	385
				629		1.02915		Divided
		13895.8	15260.6	172		1364.8	High confidence	Subtracted
				242		1.09822		Divided
	1	47.2654	63.8686	64	Rooted	1.35128
				67		16.6032		Subtracted
		72.6287	71.9496	4914		1.00944	Low confidence	Divided
				4919		0.6791		Subtracted
		201.5	199.383	4130	Ranked	1.01062		Divided
				4141		2.117		Subtracted
		245.247	185.678	18		1.32082	High confidence	Divided
				54		59.569		Subtracted
		2765.82	4489.19	60	Measured	1.6231		Divided
				164		1723.37		Subtracted
		6768.05	8875.01	245	Squared	1.31131		Divided
				1962		2106.96		Subtracted
		7900.54	7853.62	4909	Measured	46.92	Low confidence
				4914		1.00597		Divided
		41688.5	43628.5	1119	Squared	1.04654
				1423		1940		Subtracted
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]		76.3375	73.5001	980	Rooted	2.8374
				1092		1.0386		Divided
		79.1513	74.3557	610		4.7956	High confidence	Subtracted
				805		1.0645		Divided
		181.041	186.741	1038	Ranked	1.03148
				1120		5.7		Subtracted
		194.038	198.342	1328		1.02218	Low confidence	Divided
				1408		4.304		Subtracted
		8585.64	8255.95	780	Measured	329.69
				885		1.03993		Divided
		8630.06	7551.8	310		1078.26	High confidence	Subtracted
				509		1.14278		Divided
		39351.7	30807.7	274	Squared	8544		Subtracted
				295		1.27733		Divided
		45736	46617.7	4514		881.7	Low confidence	Subtracted
				4562		1.01928		Divided
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]		76.3467	73.5068	977	Rooted	2.8399		Subtracted
				1084		1.03863		Divided

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.