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	Interaction Map	Network Comparison Type	Value Type	network_comparison	green	red

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Showing element 1 to 50 of 14920 in total

Interaction Map  : High confidence
Network Comparison Type  : Divided

description	Rank	Filtered	Value Type	network_comparison	green	red
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	18	1	Ranked	1.32082	245.247	185.678
	37	0	Measured	2.79409	934.348	334.401
			Squared	10.2338	1034.13	101.05
	53		Rooted	1.5213	18.0183	11.844
	60	1	Measured	1.6231	2765.82	4489.19
	64		Rooted	1.35128	47.2654	63.8686
	242	0	Ranked	1.09822	13895.8	15260.6
	245	1	Squared	1.31131	6768.05	8875.01
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]	295			1.27733	39351.7	30807.7
	509		Measured	1.14278	8630.06	7551.8
	805		Rooted	1.0645	79.1513	74.3557
	1038		Ranked	1.03148	181.041	186.741
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]	294		Squared	1.2776	39383.9	30826.5
	508		Measured	1.14293	8636.87	7556.75
	804		Rooted	1.0646	79.1931	74.3877
	1032		Ranked	1.03162	180.943	186.664
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]	311		Squared	1.27154	38866.5	30566.4
	514		Measured	1.1411	8532.02	7477
	822		Rooted	1.06393	78.5795	73.8577
	1048		Ranked	1.031	182.308	187.96
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]	308		Squared	1.27205	38919.9	30596.2
	513		Measured	1.14143	8543.66	7485.08
	811		Rooted	1.06415	78.6514	73.9102
	1043		Ranked	1.03128	182.137	187.834
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]	3126		Measured	1	0.00001	0.00001
			Ranked
			Squared
			Rooted
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	588		Squared	1.18502	27879.3	23526.4
	1136		Measured	1.08864	6303.92	5790.65
	1907		Rooted	1.02906	65.2789	63.4353
	1963		Ranked	1.00978	213.703	211.633
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	2922		Measured	1	0.00001	0.00001
			Ranked
			Squared
			Rooted
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946]	1143		Squared	1.14046	32561.8	28551.5
	1411		Measured	1.07743	6262.07	5812.02
	1943		Rooted	1.02853	63.0838	61.3337
	2439		Ranked	1.00337	221.425	220.681
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]	3088		Measured	1	0.00001	0.00001
			Ranked
			Squared
			Rooted
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312]	1135		Squared	1.14128	32641.7	28600.9
	1415		Measured	1.0774	6265.44	5815.33
	1961		Rooted	1.02824	63.0743	61.3419
	2396		Ranked	1.00375	221.51	220.683
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758]	921		Squared	1.15651	29768.2	25739.7
	1600		Measured	1.07145	6788.96	6336.22

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.