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

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Showing element 751 to 800 of 38536 in total

Network Comparison Type  : Divided

description	Filtered	Rank	Value Type	green	network_comparison	Interaction Map	red
40s ribosomal protein s24 (s19). [swissprot;acc:p16632]	1	1690	Ranked	227.184	1.0138	High confidence	224.091
		2393	Rooted	59.9777	1.01584		59.0426
		3255	Squared	42333.2	1.03414	Low confidence	43778.6
		4004	Measured	7918.48	1.02235		7745.35
		4646	Rooted	72.0524	1.01956		70.67
		4880	Ranked	204.674	1.00256		204.152
40s ribosomal protein s25. [swissprot;acc:p25111]	0	102		11774.2	1.21683		9676.12
		175	Rooted	21.3524	1.15104		24.5774
		440	Squared	11777.6	1.10545		10654.1
		736	Measured	1530.84	1.01365		1551.74
	1	266	Squared	44504.2	1.08937		48481.4
		1980	Ranked	202.249	1.01953		206.198
		3531	Rooted	73.1741	1.03006		71.0385
		4793	Measured	8131.21	1.01128		8040.5
40s ribosomal protein s26. [swissprot;acc:p02383]	0	43	Rooted	5.66499	1.75134	High confidence	9.92134
		58	Measured	81.2233	1.85588		150.741
		112	Ranked	17098	1.1982		14269.7
		152	Squared	5.24885	1.67729		8.80383
		524	Ranked	11262.9	1.05312	Low confidence	10694.8
		627	Measured	2484.72	1.03073		2410.65
		728	Squared	21304.5	1.02434		21823.1
		820	Rooted	26.7508	1.0023		26.6893
	1	454	Ranked	226.578	1.07779	High confidence	210.224
		806	Rooted	58.6426	1.06435		62.4161
		1231	Squared	43052.3	1.04547	Low confidence	45009.8
		1655	Measured	5131.89	1.06953	High confidence	5488.7
		2578	Squared	22157.6	1.04582		23172.9
		4266	Ranked	204.106	1.00944	Low confidence	202.198
		4626	Measured	7946.17	1.01614		7819.92
		4820	Rooted	72.201	1.01448		71.1707
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	0	380	Ranked	9936.37	1.0387	High confidence	9566.15
		395	Rooted	30.9731	1.03421		32.0326
		444	Measured	2378.99	1.02223		2431.87
		472	Squared	6524	1.01255		6605.9
		609	Measured	1650.32	1.03491	Low confidence	1594.65
		619	Ranked	10278.1	1.0306		9972.93
		705	Squared	4228.5	1.03426		4088.42
		836	Rooted	27.1942	1.00023		27.188
	1	1102	Ranked	235.974	1.02847	High confidence	229.442
		1374	Squared	43504.2	1.04423	Low confidence	45428.3
		1405		21974.6	1.12136	High confidence	19596.4
		2126	Measured	5066.92	1.05422		4806.33
		2682	Rooted	56.8729	1.00336		56.6826
		3787		73.5901	1.02871	Low confidence	71.5364
		3837	Measured	8140.73	1.02379		7951.55
		3981	Ranked	200.675	1.01194		203.072
40s ribosomal protein s27a. [swissprot;acc:p14798]		690	Squared	45844.2	1.05417		48327.7
		3401	Rooted	74.1833	1.03064		71.9782
		3486	Ranked	199.484	1.01499		202.475
		3828	Measured	8293.47	1.02385		8100.31

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.