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	Rank	red	Value Type	Interaction Map	network_comparison	Network Comparison Type

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Showing element 501 to 550 of 77072 in total

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description	green	Rank	red	Value Type	Interaction Map	network_comparison	Network Comparison Type
60s ribosomal protein l18a. [swissprot;acc:q02543]	10437.1	90	12738.7	Ranked	High confidence	2301.6	Subtracted
		102				1.22052	Divided
	26833.6	49	21978	Squared	Low confidence	4855.6	Subtracted
		261				1.22093	Divided
60s ribosomal protein l21. [swissprot;acc:p46778]	27.0433	501	25.7322	Rooted		1.3111	Subtracted
		518				1.05095	Divided
	29.2291	40	20.5734		High confidence	8.6557	Subtracted
		65				1.42072	Divided
	359.589	86	146.619	Squared		2.45254
		228				212.97	Subtracted
	992.083	72	572	Measured		1.73441	Divided
		75				420.083	Subtracted
	2075.51	474	2157.52		Low confidence	82.01
		587				1.03951	Divided
	6758.83	41	9994.33	Ranked	High confidence	1.47871
		60				3235.5	Subtracted
	10078.9	115	12406	Squared	Low confidence	2327.1
		252				1.23089	Divided
	10779.4	328	11605.1	Ranked		825.7	Subtracted
		428				1.0766	Divided
60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268]	16.0484	131	19.3128	Rooted	High confidence	1.20341
		161				3.2644	Subtracted
	26.2873	642	27.023		Low confidence	0.7357
		648				1.02799	Divided
	141.849	82	374.181	Squared	High confidence	2.63788
		223				232.332	Subtracted
	476.619	97	728.65	Measured		1.52879	Divided
		135				252.031	Subtracted
	1895.34	426	1788.69		Low confidence	106.65
		503				1.05962	Divided
	7316.01	198	6206.25	Squared		1109.76	Subtracted
		294				1.17881	Divided
	11452	564	10962.4	Ranked		1.04466
		566				489.6	Subtracted
	12508.3	387	12115.7		High confidence	392.6
		411				1.0324	Divided
60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	29.46	748	29.11	Rooted	Low confidence	0.35	Subtracted
		757				1.01202	Divided
	30.112	269	28.0195		High confidence	2.0925	Subtracted
		298				1.07468	Divided
	1956.36	162	1753.85	Measured		202.51	Subtracted
		284				1.11547	Divided
	2362.61	731	2339.98		Low confidence	22.63	Subtracted
		774				1.00967	Divided
	5226.4	122	4214.44	Squared	High confidence	1011.96	Subtracted
		274				1.24012	Divided
	9622.45	311	10253.5	Ranked		1.06558
		334				631.05	Subtracted
	10251.3	677	10463.7		Low confidence	1.02072	Divided
		693				212.4	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.