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

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Showing element 101 to 150 of 77072 in total

Filtered  : 1

description	Value Type	green	red	network_comparison	Interaction Map	Network Comparison Type	Rank
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592]	Squared	44025.2	45400.4	1.03124	Low confidence	Divided	3667
				1375.2		Subtracted	3567
	Rooted	74.9741	72.5914	1.03282		Divided	2766
				2.3827		Subtracted	2688
1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta 4 (ec 3.1.4.11) (phosphoinositide phospholipase c) (plc-beta-4) (phospholipase c-beta-4). [swissprot;acc:q15147]	Measured	0	0	0	High confidence		3126
		0.00001	0.00001	1		Divided
		8175.27	7948.01	1.02859	Low confidence		2882
				227.26		Subtracted	2902
	Ranked	0	0	0	High confidence		3126
		0.00001	0.00001	1		Divided
		199.628	202.517	1.01447	Low confidence		3585
				2.889		Subtracted	3567
	Squared	0	0	0	High confidence		3126
		0.00001	0.00001	1		Divided
		44050.1	45624.8	1.03575	Low confidence		2991
				1574.7		Subtracted	2819
	Rooted	0	0	0	High confidence		3126
		0.00001	0.00001	1		Divided
		73.847	71.5946	1.03146	Low confidence		3189
				2.2524		Subtracted	3244
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	Measured	6303.92	5790.65	1.08864	High confidence	Divided	1136
				513.27		Subtracted	1140
		8386.58	8130.62	1.03148	Low confidence	Divided	2182
				255.96		Subtracted	2020
	Ranked	196.574	200.053	1.0177		Divided	2659
				3.479		Subtracted	2668
		213.703	211.633	1.00978	High confidence	Divided	1963
				2.07		Subtracted	1933
	Squared	27879.3	23526.4	1.18502		Divided	588
				4352.9		Subtracted	688
		44870.2	46195.2	1.02953	Low confidence	Divided	3878
				1325		Subtracted	3743
	Rooted	65.2789	63.4353	1.02906	High confidence	Divided	1907
				1.8436		Subtracted	1902
		75.1674	72.718	1.03368	Low confidence	Divided	2477
				2.4494		Subtracted	2376
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	Measured	0	0	0	High confidence		2922
		0.00001	0.00001	1		Divided
		8246.34	7981.12	1.03323	Low confidence		1693
				265.22		Subtracted	1700
	Ranked	0	0	0	High confidence		2922
		0.00001	0.00001	1		Divided
		199.455	203.414	1.01985	Low confidence		1873
				3.959		Subtracted	1795
	Squared	0	0	0	High confidence		2922
		0.00001	0.00001	1		Divided
		44461.5	45711.3	1.02811	Low confidence		4003
				1249.8		Subtracted	3891
	Rooted	0	0	0	High confidence		2922
		0.00001	0.00001	1		Divided

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.