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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 63374 to 63423 of 66312 in total

Filtered  : 1

description	Rank	Hugo	Network Comparison Type	Value Type	Interaction Map	red	green	network_comparison
visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [swissprot;acc:p37235]	2257	HPCAL1	Subtracted	Measured	High confidence	5259.97	5518.26	258.29
	2664		Divided	Rooted		58.9061	59.1866	1.00476
	2672		Subtracted					0.2805
	2788			Measured	Low confidence	7963.79	8194.87	231.08
	2816		Divided					1.02902
	2917		Subtracted	Squared		45386	43830.1	1555.9
	2944		Divided	Rooted		71.6699	73.9861	1.03232
	2988		Subtracted					2.3162
	3037		Divided	Squared		45386	43830.1	1.0355
	3092		Subtracted	Ranked		202.644	199.394	3.25
	3141		Divided					1.0163
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682]	5	BEST2	Subtracted	Squared		332411	473408	140997
	7			Measured		36360.3	43368.8	7008.5
	14		Divided	Ranked		37.9984	29.1831	1.30207
			Subtracted	Rooted		186.878	204.057	17.179
	19		Divided	Squared		332411	473408	1.42416
	33			Measured		36360.3	43368.8	1.19275
	93			Rooted		186.878	204.057	1.09193
	278		Subtracted	Ranked		37.9984	29.1831	8.8153
vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	3	BEST4		Squared		333506	475045	141539
	5			Measured		36469.3	43503.3	7034
	12		Divided	Ranked		37.3475	28.5242	1.30933
			Subtracted	Rooted		187.325	204.557	17.232
	17		Divided	Squared		333506	475045	1.4244
	31			Measured		36469.3	43503.3	1.19287
	90			Rooted		187.325	204.557	1.09199
	274		Subtracted	Ranked		37.3475	28.5242	8.8233
voltage-dependent anion-selective channel protein 1 (vdac-1) (hvdac1) (outer mitochondrial membrane protein porin 1) (plasmalemmal porin) (porin 31hl) (porin 31hm). [swissprot;acc:p21796]	1350	no value		Measured		8243.37	8521.94	278.57
	1568		Divided					1.03379
	2331		Subtracted	Rooted		73.3102	75.7728	2.4626
	2512		Divided					1.03359
	3077			Ranked		198.828	195.592	1.01654
	3119		Subtracted					3.236
	4423			Squared		46929.5	45958.3	971.2
	4489		Divided					1.02113
voltage-dependent anion-selective channel protein 2 (vdac-2) (hvdac2) (outer mitochondrial membrane protein porin 2). [swissprot;acc:p45880]	1354	VDAC2	Subtracted	Measured		8242.31	8520.63	278.32
	1573		Divided					1.03377
	2335		Subtracted	Rooted		73.3043	75.766	2.4617
	2515		Divided					1.03358
	3079			Ranked		198.841	195.607	1.01653
	3120		Subtracted					3.234
	4418			Squared		46922.6	45948.7	973.9
	4484		Divided					1.0212
voltage-dependent anion-selective channel protein 3 (vdac-3) (hvdac3) (outer mitochondrial membrane protein porin 3). [swissprot;acc:q9y277]	1349	VDAC3	Subtracted	Measured		8243.89	8522.47	278.58
	1567		Divided					1.03379
	2327		Subtracted	Rooted		73.3124	75.7759	2.4635
	2508		Divided					1.0336
	3069			Ranked		198.825	195.586	1.01656
	3112		Subtracted					3.239
	4419			Squared		46934.2	45960.8	973.4

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
- Hugo is the HGNC identifier if it exists
- 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.