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	Interaction Map	network_comparison	red	Gene	Rank	Network Comparison Type

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Showing element 1 to 50 of 77072 in total

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