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

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Showing element 1 to 50 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

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

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.