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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 3180 to 3229 of 77072 in total

description	Rank	Filtered	Value Type	Network Comparison Type	green	Interaction Map	red	network_comparison
60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	1255	1	Measured	Subtracted	8101.14	Low confidence	7817.38	283.76
	1501		Squared	Divided	20672	High confidence	18555.4	1.11407
	1696		Rooted		54.8538		56.6562	1.03286
	1829				73.5542	Low confidence	71.0339	1.03548
	1948		Squared	Subtracted	20672	High confidence	18555.4	2116.6
	1950		Rooted		54.8538		56.6562	1.8024
	2048				73.5542	Low confidence	71.0339	2.5203
	2548		Measured	Divided	4824.4	High confidence	4725.79	1.02087
	2569			Subtracted				98.61
	3117		Ranked		200.191	Low confidence	203.428	3.237
	3174			Divided				1.01617
	4198		Squared		42999.9		44114.5	1.02592
	4203			Subtracted				1114.6
60s ribosomal protein l37a. [swissprot;acc:p12751]	18	0	Measured	Divided	26.1599	High confidence	305.45	11.6763
	25		Squared		0.344399		44.3683	128.828
			Rooted		3.80565		13.7805	3.62106
	27		Ranked	Subtracted	18499.2		12941.7	5557.5
			Rooted		3.80565		13.7805	9.97485
	37		Ranked		15783.5	Low confidence	12374.3	3409.2
	41		Rooted		9.96201		16.1217	6.15969
	46		Ranked	Divided	18499.2	High confidence	12941.7	1.42943
	53	1		Subtracted	217.005	Low confidence	239.692	22.687
	54	0	Rooted	Divided	9.96201		16.1217	1.61832
	55	1			64.3669		57.2649	1.12402
	63	0	Ranked		15783.5		12374.3	1.27551
	68	1			217.005		239.692	1.10455
			Rooted	Subtracted	64.3669		57.2649	7.102
	101	0	Measured	Divided	362.955		535.61	1.47569
	114			Subtracted	26.1599	High confidence	305.45	279.29
	139	1		Divided	6277.91	Low confidence	5762.4	1.08946
	244			Subtracted				515.51
	301	0			362.955		535.61	172.655
	335		Squared		0.344399	High confidence	44.3683	44.0239
	680				1009.55	Low confidence	1052.5	42.95
	684			Divided				1.04254
	2959	1	Measured		0.00001	High confidence	0.00001	1
				Subtracted	0		0	0
			Ranked	Divided	0.00001		0.00001	1
				Subtracted	0		0	0
			Squared	Divided	0.00001		0.00001	1
				Subtracted	0		0	0
			Rooted	Divided	0.00001		0.00001	1
				Subtracted	0		0	0
	3873		Squared	Divided	31052	Low confidence	31970.2	1.02957
	4479			Subtracted				918.2
60s ribosomal protein l38. [swissprot;acc:p23411]	2612		Measured	Divided	8146.53		7910.01	1.0299
	2613			Subtracted				236.52
	2985		Squared		43366.8		44901.4	1534.6
	3043			Divided				1.03539
	3566		Rooted		73.6472		71.5134	1.02984

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.