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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

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Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

description	Rank	Filtered	green	Value Type	Interaction Map	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	18	1	245.247	Ranked	High confidence	185.678	1.32082
	37	0	934.348	Measured		334.401	2.79409
			1034.13	Squared		101.05	10.2338
	53		18.0183	Rooted		11.844	1.5213
	60	1	2765.82	Measured		4489.19	1.6231
	64		47.2654	Rooted		63.8686	1.35128
	131	0	851.77	Measured	Low confidence	645.504	1.31954
	146		1268.51	Squared		775.72	1.63527
	242		13895.8	Ranked	High confidence	15260.6	1.09822
	245	1	6768.05	Squared		8875.01	1.31131
	537	0	17.0804	Rooted	Low confidence	16.298	1.04801
	629		13590.3	Ranked		13205.3	1.02915
	1119	1	41688.5	Squared		43628.5	1.04654
	4130		201.5	Ranked		199.383	1.01062
	4914		72.6287	Rooted		71.9496	1.00944
			7900.54	Measured		7853.62	1.00597
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	Squared	High confidence	30807.7	1.27733
	509		8630.06	Measured		7551.8	1.14278
	805		79.1513	Rooted		74.3557	1.0645
	885		8585.64	Measured	Low confidence	8255.95	1.03993
	1038		181.041	Ranked	High confidence	186.741	1.03148
	1092		76.3375	Rooted	Low confidence	73.5001	1.0386
	1328		194.038	Ranked		198.342	1.02218
	4562		45736	Squared		46617.7	1.01928
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		39383.9		High confidence	30826.5	1.2776
	508		8636.87	Measured		7556.75	1.14293
	804		79.1931	Rooted		74.3877	1.0646
	880		8587.03	Measured	Low confidence	8256.68	1.04001
	1032		180.943	Ranked	High confidence	186.664	1.03162
	1084		76.3467	Rooted	Low confidence	73.5068	1.03863
	1322		194.014	Ranked		198.322	1.0222
	4569		45740.5	Squared		46616.1	1.01914
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]	237		9081.29	Measured		8530.51	1.06457
	311		38866.5	Squared	High confidence	30566.4	1.27154
	378		79.5804	Rooted	Low confidence	75.8843	1.04871
	514		8532.02	Measured	High confidence	7477	1.1411
	588		185.859	Ranked	Low confidence	191.507	1.03039
	822		78.5795	Rooted	High confidence	73.8577	1.06393
	1048		182.308	Ranked		187.96	1.031
	4138		47372.8	Squared	Low confidence	46138.2	1.02676
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]	252		9018.94	Measured		8492.92	1.06194
	308		38919.9	Squared	High confidence	30596.2	1.27205
	427		79.1997	Rooted	Low confidence	75.6219	1.04731
	513		8543.66	Measured	High confidence	7485.08	1.14143
	637		186.751	Ranked	Low confidence	192.166	1.029
	811		78.6514	Rooted	High confidence	73.9102	1.06415
	1043		182.137	Ranked		187.834	1.03128
	4418		47088.3	Squared	Low confidence	46049.4	1.02256
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592]	2035		8323.04	Measured		8065.05	1.03199
	2766		74.9741	Rooted		72.5914	1.03282

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.