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

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Showing element 551 to 600 of 77072 in total

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description	Value Type	Rank	Network Comparison Type	green	network_comparison	Interaction Map	red
60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	Rooted	748	Subtracted	29.46	0.35	Low confidence	29.11
		757	Divided		1.01202
60s ribosomal protein l23a. [swissprot;acc:p29316]	Measured	191	Subtracted	1463.51	168.02	High confidence	1295.49
		259	Divided		1.1297
		331	Subtracted	1624.07	148.86	Low confidence	1475.21
		406	Divided		1.10091
	Ranked	198	Subtracted	10636.3	1208.6	High confidence	11844.9
		205	Divided		1.11363
		269	Subtracted	10763.7	982.1	Low confidence	11745.8
		367	Divided		1.09124
	Squared	155	Subtracted	3420.27	635.5	High confidence	2784.77
		283	Divided		1.22821
		303	Subtracted	5475.43	566.91	Low confidence	4908.52
		394	Divided		1.1155
	Rooted	224	Subtracted	25.1571	2.5057	High confidence	22.6514
		244	Divided		1.11062
		370	Subtracted	25.4726	2.018	Low confidence	23.4546
		390	Divided		1.08604
60s ribosomal protein l36. [swissprot;acc:q9y3u8]	Measured	302		950.464	1.19021		798.57
		326	Subtracted		151.894
	Ranked	657		11855.3	266.2		11589.1
		663	Divided		1.02297
	Squared	352	Subtracted	3877.21	411.94		3465.27
		378	Divided		1.11888
	Rooted	485		19.2298	1.05956		18.1489
		565	Subtracted		1.0809
60s ribosomal protein l37a. [swissprot;acc:p12751]	Measured	18	Divided	26.1599	11.6763	High confidence	305.45
		101		362.955	1.47569	Low confidence	535.61
		114	Subtracted	26.1599	279.29	High confidence	305.45
		301		362.955	172.655	Low confidence	535.61
	Ranked	27		18499.2	5557.5	High confidence	12941.7
		37		15783.5	3409.2	Low confidence	12374.3
		46	Divided	18499.2	1.42943	High confidence	12941.7
		63		15783.5	1.27551	Low confidence	12374.3
	Squared	25		0.344399	128.828	High confidence	44.3683
		335	Subtracted		44.0239
		680		1009.55	42.95	Low confidence	1052.5
		684	Divided		1.04254
	Rooted	25		3.80565	3.62106	High confidence	13.7805
		27	Subtracted		9.97485
		41		9.96201	6.15969	Low confidence	16.1217
		54	Divided		1.61832
60s ribosomal protein l39. [swissprot;acc:p02404]	Measured	271	Subtracted	2923.92	100.86	High confidence	3024.78
		412	Divided		1.03449
		530	Subtracted	1790.31	69.54	Low confidence	1859.85
		592	Divided		1.03884
	Ranked	128		9794.29	1.18073	High confidence	11564.4
		129	Subtracted		1770.11
		398		12300.8	628.4	Low confidence	11672.4
		521	Divided		1.05384

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.