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	Network Comparison Type	Interaction Map	Value Type	green	network_comparison	red

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Showing element 1 to 50 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

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