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

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Showing element 1 to 50 of 12912 in total

Interaction Map  : High confidence
Network Comparison Type  : Divided
Filtered  : 1

description	green	Value Type	Rank	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	47.2654	Rooted	64	63.8686	1.35128
	245.247	Ranked	18	185.678	1.32082
	2765.82	Measured	60	4489.19	1.6231
	6768.05	Squared	245	8875.01	1.31131
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]	79.1513	Rooted	805	74.3557	1.0645
	181.041	Ranked	1038	186.741	1.03148
	8630.06	Measured	509	7551.8	1.14278
	39351.7	Squared	295	30807.7	1.27733
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]	79.1931	Rooted	804	74.3877	1.0646
	180.943	Ranked	1032	186.664	1.03162
	8636.87	Measured	508	7556.75	1.14293
	39383.9	Squared	294	30826.5	1.2776
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]	78.5795	Rooted	822	73.8577	1.06393
	182.308	Ranked	1048	187.96	1.031
	8532.02	Measured	514	7477	1.1411
	38866.5	Squared	311	30566.4	1.27154
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]	78.6514	Rooted	811	73.9102	1.06415
	182.137	Ranked	1043	187.834	1.03128
	8543.66	Measured	513	7485.08	1.14143
	38919.9	Squared	308	30596.2	1.27205
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]	0.00001	Measured	3126	0.00001	1
		Ranked
		Squared
		Rooted
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	65.2789		1907	63.4353	1.02906
	213.703	Ranked	1963	211.633	1.00978
	6303.92	Measured	1136	5790.65	1.08864
	27879.3	Squared	588	23526.4	1.18502
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	0.00001	Measured	2922	0.00001	1
		Ranked
		Squared
		Rooted
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946]	63.0838		1943	61.3337	1.02853
	221.425	Ranked	2439	220.681	1.00337
	6262.07	Measured	1411	5812.02	1.07743
	32561.8	Squared	1143	28551.5	1.14046
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]	0.00001	Measured	3088	0.00001	1
		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]	63.0743		1961	61.3419	1.02824
	221.51	Ranked	2396	220.683	1.00375
	6265.44	Measured	1415	5815.33	1.0774
	32641.7	Squared	1135	28600.9	1.14128
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758]	68.7832	Rooted	2036	66.966	1.02714
	202.529	Ranked	2366	203.353	1.00407
	6788.96	Measured	1600	6336.22	1.07145
	29768.2	Squared	921	25739.7	1.15651
15 kda selenoprotein precursor. [swissprot;acc:o60613]	67.2624	Rooted	1334	64.5959	1.04128
	212.432	Ranked	1948	214.522	1.00984

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.