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

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Showing element 551 to 600 of 38536 in total

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Network Comparison Type  : Divided

description	Value Type	green	Interaction Map	network_comparison	Rank	red
amiloride-sensitive cation channel 3 isoform a; testis sodium channel 1; proton-gated cation channel subunit; modulatory subunit of asic2a; amiloride-sensitive cation channel 3, testis. [refseq;acc:nm_004769]	Squared	17.0377	Low confidence	2.86254	77	5.95196
	Rooted	12.2759		1.04115	569	11.7907
amiloride-sensitive sodium channel delta-subunit (epithelial na+ channel delta subunit) (delta enac) (nonvoltage-gated sodium channel 1 delta subunit) (scned) (delta nach). [swissprot;acc:p51172]	Measured	194.326		1.32901	129	146.219
	Ranked	12556.6		1.01163	749	12412.3
	Squared	17.4184		2.95519	75	5.89418
	Rooted	12.3994		1.05566	498	11.7456
amiloride-sensitive sodium channel gamma-subunit (epithelial na+ channel gamma subunit) (gamma enac) (nonvoltage-gated sodium channel 1 gamma subunit) (scneg) (gamma nach). [swissprot;acc:p51170]	Measured	191.013		1.29775	140	147.188
	Ranked	12631.8		1.02055	678	12377.4
	Squared	17.0364		2.86222	78	5.95216
	Rooted	12.2755		1.0411	570	11.7909
anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5]	Measured	4624.67		1.01185	758	4679.45
		14167	High confidence	1.08783	332	15411.3
	Ranked	9812.39		1.08171	279	10614.2
		10847.1	Low confidence	1.01831	704	10652.1
	Squared	44134.3		1.06886	606	47173.2
		170319	High confidence	1.14724	329	195397
	Rooted	35.7083	Low confidence	1.00771	784	35.9836
		71.5378	High confidence	1.03816	378	74.2677
anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	Measured	4356	Low confidence	2.09222	62	2082
	Ranked	1933		1.65028	12	3190
	Squared	4491.06		4.37738	57	1025.97
	Rooted	66		1.44645	64	45.6289
apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	Measured	2283.84		1.02656	650	2224.76
		12125.1	High confidence	1.12092	276	10817.1
	Ranked	11582.7		1.02719	427	11276.1
		12156	Low confidence	1.04179	578	11668.4
	Squared	17253.9		1.13698	347	15175.2
		170628	High confidence	1.2613	261	135280
	Rooted	24.7479	Low confidence	1.03573	598	25.6322
		55.9159	High confidence	1.03778	381	53.8801
aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181]	Measured	609.23	Low confidence	1.13211	351	689.713
		1354.26	High confidence	1.26383	164	1711.55
	Ranked	12093	Low confidence	1.01871	697	12319.2
		14370.7	High confidence	1.19269	118	12049
	Squared	933.158	Low confidence	1.31312	205	1225.35
		6483.52	High confidence	1.79304	134	11625.2
	Rooted	17.1911	Low confidence	1.03249	616	17.7497
		17.849	High confidence	1.18172	142	21.0926
arf gtpase-activating protein. [refseq;acc:nm_133446]	Measured	37	Low confidence	1.78378	74	66
	Ranked	16969		1.13962	268	14890
	Squared	0.324024		3.18189	70	1.03101
	Rooted	6.08276		1.33558	87	8.12404
ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376]	Measured	2076.5	High confidence	1.18661	211	2464
		4967.68	Low confidence	1.02994	629	5116.41
	Ranked	4554.5	High confidence	1.38688	52	3284
		11715.9	Low confidence	1.02404	652	11440.9
	Squared	1500.84	High confidence	1.16098	324	1742.44
		57580.1	Low confidence	1.06518	614	61333
	Rooted	33.9829		1.029	636	34.9685
		42.3517	High confidence	1.13858	211	48.2208

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.