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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 3208 to 3257 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Rank	Hugo	Network Comparison Type	Value Type	red	green	network_comparison
beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	492	ALG1	Subtracted	Ranked	150.982	166.372	15.39
beta-1-syntrophin (59 kda dystrophin-associated protein a1, basic component 1) (dapa1b) (tax interaction protein 43) (tip-43) (syntrophin 2) (bsyn2). [swissprot;acc:q13884]	1616	SNTB1		Squared	26167.1	28674.2	2507.1
	1757			Measured	5829.61	6218.27	388.66
	1764		Divided				1.06667
	1851			Squared	26167.1	28674.2	1.09581
	1920			Rooted	62.8946	64.6999	1.0287
	1939		Subtracted				1.8053
	2576		Divided	Ranked	213.422	213.75	1.00154
	2577		Subtracted				0.328
beta-2-syntrophin (59 kda dystrophin-associated protein a1, basic component 2) (syntrophin 3) (snt3) (syntrophin-like) (sntl). [swissprot;acc:q13425]	1617	SNTB2		Squared	26167.1	28674.2	2507.1
	1758			Measured	5829.61	6218.27	388.66
	1765		Divided				1.06667
	1852			Squared	26167.1	28674.2	1.09581
	1921			Rooted	62.8946	64.6999	1.0287
	1940		Subtracted				1.8053
	2578		Divided	Ranked	213.422	213.75	1.00154
			Subtracted				0.328
beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	13	ARRB1		Rooted	80.4705	101.526	21.0555
	32		Divided	Squared	9924.76	25146.6	2.53372
	50			Ranked	133	105	1.26667
	62		Subtracted	Measured	6475.5	10307.5	3832
	68		Divided				1.59177
	114			Rooted	80.4705	101.526	1.26165
	164		Subtracted	Ranked	133	105	28
	178			Squared	9924.76	25146.6	15221.8
beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	12	ARRB2		Rooted	80.4705	101.526	21.0555
	31		Divided	Squared	9924.76	25146.6	2.53372
	49			Ranked	133	105	1.26667
	61		Subtracted	Measured	6475.5	10307.5	3832
	67		Divided				1.59177
	113			Rooted	80.4705	101.526	1.26165
	163		Subtracted	Ranked	133	105	28
	177			Squared	9924.76	25146.6	15221.8
beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [refseq;acc:nm_017429]	1641	BCMO1	Divided	Rooted	61.2707	63.3571	1.03405
	1673			Measured	5791.14	6193.02	1.0694
	1698		Subtracted				401.88
	1703			Rooted	61.2707	63.3571	2.0864
	1757			Squared	27346	29649.9	2303.9
	2178			Ranked	221.509	220.108	1.401
	2194		Divided	Squared	27346	29649.9	1.08425
	2222			Ranked	221.509	220.108	1.00637
beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	1640	no value		Rooted	61.2707	63.3571	1.03405
	1672			Measured	5791.14	6193.02	1.0694
	1697		Subtracted				401.88
	1702			Rooted	61.2707	63.3571	2.0864
	1756			Squared	27346	29649.9	2303.9
	2177			Ranked	221.509	220.108	1.401
	2193		Divided	Squared	27346	29649.9	1.08425
	2221			Ranked	221.509	220.108	1.00637
beta-catenin (pro2286). [swissprot;acc:p35222]	778	CTNNB1	Subtracted		224.445	214.894	9.551

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
- Hugo is the HGNC identifier if it exists
- 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.