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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

description	Filtered	Rank	Value Type	Network Comparison Type	green	Interaction Map	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	0	37	Measured	Divided	934.348	High confidence	334.401	2.79409
			Squared		1034.13		101.05	10.2338
		45	Measured	Subtracted	934.348		334.401	599.947
		53	Rooted	Divided	18.0183		11.844	1.5213
		69		Subtracted				6.1743
		131	Measured	Divided	851.77	Low confidence	645.504	1.31954
			Squared	Subtracted	1034.13	High confidence	101.05	933.08
		146		Divided	1268.51	Low confidence	775.72	1.63527
		172	Ranked	Subtracted	13895.8	High confidence	15260.6	1364.8
		242		Divided				1.09822
		273	Measured	Subtracted	851.77	Low confidence	645.504	206.266
		319	Squared		1268.51		775.72	492.79
		537	Rooted	Divided	17.0804		16.298	1.04801
		600	Ranked	Subtracted	13590.3		13205.3	385
		629		Divided				1.02915
		634	Rooted	Subtracted	17.0804		16.298	0.7824
	1	18	Ranked	Divided	245.247	High confidence	185.678	1.32082
		54		Subtracted				59.569
		60	Measured	Divided	2765.82		4489.19	1.6231
		64	Rooted		47.2654		63.8686	1.35128
		67		Subtracted				16.6032
		164	Measured		2765.82		4489.19	1723.37
		245	Squared	Divided	6768.05		8875.01	1.31131
		1119			41688.5	Low confidence	43628.5	1.04654
		1423		Subtracted				1940
		1962			6768.05	High confidence	8875.01	2106.96
		4130	Ranked	Divided	201.5	Low confidence	199.383	1.01062
		4141		Subtracted				2.117
		4909	Measured		7900.54		7853.62	46.92
		4914		Divided				1.00597
			Rooted		72.6287		71.9496	1.00944
		4919		Subtracted				0.6791
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]		274	Squared		39351.7	High confidence	30807.7	8544
		295		Divided				1.27733
		310	Measured	Subtracted	8630.06		7551.8	1078.26
		509		Divided				1.14278
		610	Rooted	Subtracted	79.1513		74.3557	4.7956
		780	Measured		8585.64	Low confidence	8255.95	329.69
		805	Rooted	Divided	79.1513	High confidence	74.3557	1.0645
		885	Measured		8585.64	Low confidence	8255.95	1.03993
		980	Rooted	Subtracted	76.3375		73.5001	2.8374
		1038	Ranked	Divided	181.041	High confidence	186.741	1.03148
		1092	Rooted		76.3375	Low confidence	73.5001	1.0386
		1120	Ranked	Subtracted	181.041	High confidence	186.741	5.7
		1328		Divided	194.038	Low confidence	198.342	1.02218
		1408		Subtracted				4.304
		4514	Squared		45736		46617.7	881.7
		4562		Divided				1.01928
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]		273		Subtracted	39383.9	High confidence	30826.5	8557.4
		294		Divided				1.2776

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.