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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Rank	Network Comparison Type	Value Type	green	red	network_comparison
40s ribosomal protein s13. [swissprot;acc:q02546]	1695	Subtracted	Ranked	223.813	220.899	2.914
	1722	Divided				1.01319
	2348		Rooted	61.6019	60.5137	1.01798
	2361	Subtracted				1.0882
40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	323		Ranked	264.11	242.238	21.872
	386	Divided				1.09029
	530		Rooted	46.6413	50.6537	1.08603
	824	Subtracted				4.0124
	1823	Divided	Squared	14424.1	13145.4	1.09727
	2418	Subtracted				1278.7
	2436	Divided	Measured	3584.47	3708.67	1.03465
	2520	Subtracted				124.2
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	219		Ranked	266.986	242.339	24.647
	304	Divided				1.1017
	376		Rooted	45.5688	50.2554	1.10285
	651	Subtracted				4.6866
	1989	Divided	Squared	13523.5	12388.6	1.09161
	2067		Measured	3411.18	3602.75	1.05616
	2391	Subtracted				191.57
	2497		Squared	13523.5	12388.6	1134.9
40s ribosomal protein s15a. [swissprot;acc:p39027]	206		Ranked	266.414	241.411	25.003
	292	Divided				1.10357
	366		Rooted	45.7763	50.5463	1.1042
	615	Subtracted				4.77
	2008	Divided	Measured	3435.61	3637.47	1.05876
	2015		Squared	13600.6	12467.2	1.09091
	2368	Subtracted	Measured	3435.61	3637.47	201.86
	2502		Squared	13600.6	12467.2	1133.4
40s ribosomal protein s16. [swissprot;acc:p17008]	326		Ranked	263.62	241.828	21.792
	391	Divided				1.09011
	534		Rooted	46.8198	50.8036	1.08509
	830	Subtracted				3.9838
	1784	Divided	Squared	14564.4	13244.1	1.09969
	2407	Subtracted				1320.3
	2448	Divided	Measured	3611.05	3730.53	1.03309
	2528	Subtracted				119.48
40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	324		Ranked	264.11	242.238	21.872
	387	Divided				1.09029
	531		Rooted	46.6413	50.6537	1.08603
	825	Subtracted				4.0124
	1824	Divided	Squared	14424.1	13145.4	1.09727
	2419	Subtracted				1278.7
	2437	Divided	Measured	3584.47	3708.67	1.03465
	2521	Subtracted				124.2
40s ribosomal protein s19. [swissprot;acc:p39019]	771	Divided	Rooted	59.3786	55.6817	1.06639
	807		Measured	5226.71	4708.61	1.11003
	820	Subtracted	Ranked	224.958	234.025	9.067
	861	Divided				1.04031
	907	Subtracted	Rooted	59.3786	55.6817	3.6969
	1099		Measured	5226.71	4708.61	518.1

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.