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

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Showing element 451 to 500 of 77072 in total

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description	green	red	Rank	Value Type	network_comparison	Interaction Map	Network Comparison Type
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	10927.4	12003.2	239	Ranked	1075.8	Low confidence	Subtracted
			345		1.09845		Divided
	12631.5	12318.7	423		312.8	High confidence	Subtracted
			429		1.02539		Divided
	42399.1	46009.8	72	Squared	3610.7	Low confidence	Subtracted
			560		1.08516		Divided
60s ribosomal protein l15. [swissprot;acc:p39030]	17.0546	19.482	186	Rooted	1.14233	High confidence
			233		2.4274		Subtracted
	18.2577	19.6961	413		1.07878	Low confidence	Divided
			476		1.4384		Subtracted
	753.793	846.216	272	Measured	1.12261	High confidence	Divided
			284		92.423		Subtracted
	1035.81	1073.94	599		1.03681	Low confidence	Divided
			642		38.13		Subtracted
	1286.61	1362.84	300	Squared	76.23	High confidence
			410		1.05925		Divided
	4629.2	4507.15	577		122.05	Low confidence	Subtracted
			721		1.02708		Divided
	12972.6	12083.8	296	Ranked	888.8		Subtracted
			447		1.07355		Divided
	13203.1	11745.2	167		1457.9	High confidence	Subtracted
			188		1.12413		Divided
60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	28.761	26.0693	210	Rooted	2.6917		Subtracted
			262		1.10325		Divided
	31.1643	29.4019	399		1.7624	Low confidence	Subtracted
			482		1.05994		Divided
	1906.28	1663.73	138	Measured	242.55	High confidence	Subtracted
			232		1.14579		Divided
	2987.56	2742.51	228		245.05	Low confidence	Subtracted
			422		1.08935		Divided
	5159.2	4121.56	118	Squared	1037.64	High confidence	Subtracted
			269		1.25176		Divided
	10251.6	11096.8	277	Ranked	1.08245
			281		845.2		Subtracted
	10757.5	11129	605		371.5	Low confidence
			607		1.03453		Divided
	21937.1	19108.6	97	Squared	2828.5		Subtracted
			334		1.14802		Divided
60s ribosomal protein l18a. [swissprot;acc:q02543]	32.2238	30.8547	327	Rooted	1.3691	High confidence	Subtracted
			363		1.04437		Divided
	36.9967	36.6174	737		0.3793	Low confidence	Subtracted
			769		1.01036		Divided
	2604.71	2688.7	313	Measured	83.99	High confidence	Subtracted
			419		1.03225		Divided
	3920.97	3708.61	264		212.36	Low confidence	Subtracted
			516		1.05726		Divided
	9385.52	9310.69	302	Squared	74.83	High confidence	Subtracted
			475		1.00804		Divided
	10063.9	10372.1	617	Ranked	1.03062	Low confidence
			629		308.2		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.