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

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Showing element 1 to 50 of 77072 in total

Value Type  : Measured

description	green	Filtered	Interaction Map	red	network_comparison	Rank	Network Comparison Type
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	851.77	0	Low confidence	645.504	1.31954	131	Divided
					206.266	273	Subtracted
	934.348		High confidence	334.401	2.79409	37	Divided
					599.947	45	Subtracted
	2765.82	1		4489.19	1.6231	60	Divided
					1723.37	164	Subtracted
	7900.54		Low confidence	7853.62	1.00597	4914	Divided
					46.92	4909	Subtracted
1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]	8585.64			8255.95	1.03993	885	Divided
					329.69	780	Subtracted
	8630.06		High confidence	7551.8	1.14278	509	Divided
					1078.26	310	Subtracted
1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]	8587.03		Low confidence	8256.68	1.04001	880	Divided
					330.35	773	Subtracted
	8636.87		High confidence	7556.75	1.14293	508	Divided
					1080.12	307	Subtracted
1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5]	8532.02			7477	1.1411	514	Divided
					1055.02	319	Subtracted
	9081.29		Low confidence	8530.51	1.06457	237	Divided
					550.78	210	Subtracted
1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7]	8543.66		High confidence	7485.08	1.14143	513	Divided
					1058.58	318	Subtracted
	9018.94		Low confidence	8492.92	1.06194	252	Divided
					526.02	230	Subtracted
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592]	8323.04			8065.05	1.03199	2035	Divided
					257.99	1941	Subtracted
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]	0		High confidence	0	0	3126
	0.00001			0.00001	1		Divided
	8175.27		Low confidence	7948.01	1.02859	2882
					227.26	2902	Subtracted
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	6303.92		High confidence	5790.65	1.08864	1136	Divided
					513.27	1140	Subtracted
	8386.58		Low confidence	8130.62	1.03148	2182	Divided
					255.96	2020	Subtracted
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	0		High confidence	0	0	2922
	0.00001			0.00001	1		Divided
	8246.34		Low confidence	7981.12	1.03323	1693
					265.22	1700	Subtracted
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704]	8067.47			7896.47	1.02166	4071	Divided
					171	4228	Subtracted
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946]	6262.07		High confidence	5812.02	1.07743	1411	Divided
					450.05	1422	Subtracted
	8965.49		Low confidence	8572.9	1.04579	575	Divided
					392.59	490	Subtracted
14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [swissprot;acc:p42655]	0		High confidence	0	0	3088
	0.00001			0.00001	1		Divided
	8370.12		Low confidence	8144.39	1.02772	3095
					225.73	2941	Subtracted
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312]	6265.44		High confidence	5815.33	1.0774	1415	Divided
					450.11	1418	Subtracted

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.