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

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Showing element 101 to 150 of 77072 in total

Filtered  : 1

description	Rank	Value Type	Interaction Map	Network Comparison Type	green	network_comparison	red
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592]	3423	Ranked	Low confidence	Divided	196.707	1.01523	199.702
	3432			Subtracted		2.995
	3567	Squared			44025.2	1375.2	45400.4
	3667			Divided		1.03124
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]	2819			Subtracted	44050.1	1574.7	45624.8
	2882	Measured		Divided	8175.27	1.02859	7948.01
	2902			Subtracted		227.26
	2991	Squared		Divided	44050.1	1.03575	45624.8
	3126	Measured	High confidence		0.00001	1	0.00001
				Subtracted	0	0	0
		Ranked		Divided	0.00001	1	0.00001
				Subtracted	0	0	0
		Squared		Divided	0.00001	1	0.00001
				Subtracted	0	0	0
		Rooted		Divided	0.00001	1	0.00001
				Subtracted	0	0	0
	3189		Low confidence	Divided	73.847	1.03146	71.5946
	3244			Subtracted		2.2524
	3567	Ranked			199.628	2.889	202.517
	3585			Divided		1.01447
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	588	Squared	High confidence		27879.3	1.18502	23526.4
	688			Subtracted		4352.9
	1136	Measured		Divided	6303.92	1.08864	5790.65
	1140			Subtracted		513.27
	1902	Rooted			65.2789	1.8436	63.4353
	1907			Divided		1.02906
	1933	Ranked		Subtracted	213.703	2.07	211.633
	1963			Divided		1.00978
	2020	Measured	Low confidence	Subtracted	8386.58	255.96	8130.62
	2182			Divided		1.03148
	2376	Rooted		Subtracted	75.1674	2.4494	72.718
	2477			Divided		1.03368
	2659	Ranked			196.574	1.0177	200.053
	2668			Subtracted		3.479
	3743	Squared			44870.2	1325	46195.2
	3878			Divided		1.02953
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	1632	Rooted			74.1551	1.03601	71.5773
	1693	Measured			8246.34	1.03323	7981.12
	1700			Subtracted		265.22
	1730	Rooted			74.1551	2.5778	71.5773
	1795	Ranked			199.455	3.959	203.414
	1873			Divided		1.01985
	2922	Measured	High confidence		0.00001	1	0.00001
				Subtracted	0	0	0
		Ranked		Divided	0.00001	1	0.00001
				Subtracted	0	0	0
		Squared		Divided	0.00001	1	0.00001
				Subtracted	0	0	0
		Rooted		Divided	0.00001	1	0.00001
				Subtracted	0	0	0

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.