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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Rank	Network Comparison Type	Value Type	green	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	18	Divided	Ranked	245.247	185.678	1.32082
	54	Subtracted				59.569
	60	Divided	Measured	2765.82	4489.19	1.6231
	64		Rooted	47.2654	63.8686	1.35128
	67	Subtracted				16.6032
	164		Measured	2765.82	4489.19	1723.37
	245	Divided	Squared	6768.05	8875.01	1.31131
	1962	Subtracted				2106.96
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]	274			39351.7	30807.7	8544
	295	Divided				1.27733
	310	Subtracted	Measured	8630.06	7551.8	1078.26
	509	Divided				1.14278
	610	Subtracted	Rooted	79.1513	74.3557	4.7956
	805	Divided				1.0645
	1038		Ranked	181.041	186.741	1.03148
	1120	Subtracted				5.7
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]	273		Squared	39383.9	30826.5	8557.4
	294	Divided				1.2776
	307	Subtracted	Measured	8636.87	7556.75	1080.12
	508	Divided				1.14293
	609	Subtracted	Rooted	79.1931	74.3877	4.8054
	804	Divided				1.0646
	1032		Ranked	180.943	186.664	1.03162
	1115	Subtracted				5.721
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]	280		Squared	38866.5	30566.4	8300.1
	311	Divided				1.27154
	319	Subtracted	Measured	8532.02	7477	1055.02
	514	Divided				1.1411
	631	Subtracted	Rooted	78.5795	73.8577	4.7218
	822	Divided				1.06393
	1048		Ranked	182.308	187.96	1.031
	1128	Subtracted				5.652
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]	279		Squared	38919.9	30596.2	8323.7
	308	Divided				1.27205
	318	Subtracted	Measured	8543.66	7485.08	1058.58
	513	Divided				1.14143
	616	Subtracted	Rooted	78.6514	73.9102	4.7412
	811	Divided				1.06415
	1043		Ranked	182.137	187.834	1.03128
	1121	Subtracted				5.697
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	Divided	Measured	0.00001	0.00001	1
			Ranked
			Squared
			Rooted
		Subtracted	Measured	0	0	0
			Ranked
			Squared
			Rooted
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	588	Divided	Squared	27879.3	23526.4	1.18502
	688	Subtracted				4352.9

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.