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	Value Type	Filtered	Interaction Map	green	Network Comparison Type	red	network_comparison

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Showing element 1 to 50 of 16578 in total

Value Type  : Ranked
Filtered  : 1

description	Rank	Interaction Map	green	Network Comparison Type	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	18	High confidence	245.247	Divided	185.678	1.32082
	54			Subtracted		59.569
	4130	Low confidence	201.5	Divided	199.383	1.01062
	4141			Subtracted		2.117
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]	1038	High confidence	181.041	Divided	186.741	1.03148
	1120			Subtracted		5.7
	1328	Low confidence	194.038	Divided	198.342	1.02218
	1408			Subtracted		4.304
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]	1032	High confidence	180.943	Divided	186.664	1.03162
	1115			Subtracted		5.721
	1322	Low confidence	194.014	Divided	198.322	1.0222
	1406			Subtracted		4.308
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]	588		185.859	Divided	191.507	1.03039
	664			Subtracted		5.648
	1048	High confidence	182.308	Divided	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]	637	Low confidence	186.751	Divided	192.166	1.029
	737			Subtracted		5.415
	1043	High confidence	182.137	Divided	187.834	1.03128
	1121			Subtracted		5.697
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592]	3423	Low confidence	196.707	Divided	199.702	1.01523
	3432			Subtracted		2.995
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	High confidence	0		0	0
			0.00001	Divided	0.00001	1
	3567	Low confidence	199.628	Subtracted	202.517	2.889
	3585			Divided		1.01447
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	1933	High confidence	213.703	Subtracted	211.633	2.07
	1963			Divided		1.00978
	2659	Low confidence	196.574		200.053	1.0177
	2668			Subtracted		3.479
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	1795		199.455		203.414	3.959
	1873			Divided		1.01985
	2922	High confidence	0	Subtracted	0	0
			0.00001	Divided	0.00001	1
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704]	4255	Low confidence	200.395		202.306	1.00954
	4263			Subtracted		1.911
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946]	2076		194.83	Divided	198.587	1.01928
	2165			Subtracted		3.757
	2421	High confidence	221.425		220.681	0.744
	2439			Divided		1.00337
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]	2864	Low confidence	197.043		200.418	1.01713
	2895			Subtracted		3.375
	3088	High confidence	0		0	0
			0.00001	Divided	0.00001	1
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312]	2108	Low confidence	194.902		198.65	1.01923
	2185			Subtracted		3.748
	2391	High confidence	221.51		220.683	0.827
	2396			Divided		1.00375
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758]	1035	Low confidence	196.966	Subtracted	201.723	4.757
	1044			Divided		1.02415

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.