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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

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