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

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Showing element 551 to 600 of 38536 in total

Network Comparison Type  : Divided

description	Value Type	Filtered	green	Rank	Interaction Map	red	network_comparison
3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]	Rooted	1	67.7402	767	High confidence	63.5181	1.06647
			76.8115	2644	Low confidence	74.3411	1.03323
3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [swissprot;acc:p18405]	Measured		6371.14	1274	High confidence	5885	1.08261
			8138.17	2082	Low confidence	7887.47	1.03178
	Ranked		199.196	949		204.147	1.02485
			213.685	1083	High confidence	220.118	1.03011
	Squared		30015.7	2609		28935	1.03735
			43316.1	1626	Low confidence	45165.2	1.04269
	Rooted		65.1892	971	High confidence	61.6649	1.05715
			73.8482	1140	Low confidence	71.1233	1.03831
3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213]	Measured		6371.14	1275	High confidence	5885	1.08261
			8138.17	2090	Low confidence	7887.47	1.03178
	Ranked		199.196	950		204.147	1.02485
			213.685	1084	High confidence	220.118	1.03011
	Squared		30015.7	2610		28935	1.03735
			43316.1	1627	Low confidence	45165.2	1.04269
	Rooted		65.1892	972	High confidence	61.6649	1.05715
			73.8482	1143	Low confidence	71.1233	1.03831
3-oxo-5-beta-steroid 4-dehydrogenase (ec 1.3.99.6) (delta(4)-3- ketosteroid 5-beta-reductase) (aldo-keto reductase family 1 member d1). [swissprot;acc:p51857]	Measured		8361.72	2235		8107.73	1.03133
	Ranked		197.384	1902		201.286	1.01977
	Squared		44839.4	3174		46389.7	1.03457
	Rooted		74.9328	2018		72.3967	1.03503
3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530]	Measured		3444.18	2547	High confidence	3370.46	1.02187
			7932.5	3553	Low confidence	7733.78	1.0257
	Ranked		205.83	4765		206.842	1.00492
			283.472	897	High confidence	272.878	1.03882
	Squared		16197	2650		16658.1	1.02847
			42545.5	2513	Low confidence	44180.9	1.03844
	Rooted		42.7253	2394	High confidence	43.4014	1.01582
			71.9424	4104	Low confidence	70.109	1.02615
38 kda fk-506 binding protein homolog (fkbpr38) (fk506-binding protein 8). [swissprot;acc:q14318]	Measured		6786.23	2261	High confidence	6486.84	1.04615
			8198.63	3779	Low confidence	8396.92	1.02419
	Ranked		197.346	2358	High confidence	198.181	1.00423
			207.631	2068	Low confidence	203.696	1.01932
	Squared		28336.5	2710	High confidence	27920.7	1.01489
			45948.1	116	Low confidence	52687.3	1.14667
	Rooted		69.9589	1826	High confidence	67.8897	1.03048
			72.2334	4988	Low confidence	72.4649	1.0032
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]	Measured	0	14.3333	121	High confidence	19.6667	1.3721
			3822.12	815	Low confidence	3831.93	1.00257
		1	5887.45	1469	High confidence	5473.09	1.07571
			8803.2	727	Low confidence	8443.4	1.04261
	Ranked	0	10788.6	481		11454.3	1.0617
			19704.7	369	High confidence	18849.7	1.04536
		1	193.541	2696	Low confidence	196.941	1.01757
			222.215	1745	High confidence	219.423	1.01272
	Squared	0	0.145878	232		0.108639	1.34278
			32991.9	740	Low confidence	33672.5	1.02063
		1	26693.1	696	High confidence	22778.5	1.17186
			48349.1	4943	Low confidence	48134.6	1.00446

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.