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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

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Showing element 780 to 829 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Rank	Hugo	Value Type	Network Comparison Type	red	green	network_comparison
5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]	690	PRKAG3	Measured	Divided	6920.69	7747.63	1.11949
	704		Rooted	Subtracted	66.9737	71.4637	4.49
	754			Divided			1.06704
	878		Ranked		212.002	203.954	1.03946
	891			Subtracted			8.048
5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126]	1192	MTAP	Squared	Divided	21639	24612.9	1.13743
	1260			Subtracted			2973.9
	1606		Measured	Divided	5232.99	5606.53	1.07138
	1746		Ranked	Subtracted	223.016	225.734	2.718
	1769			Divided			1.01219
	1846		Measured	Subtracted	5232.99	5606.53	373.54
	2302		Rooted	Divided	59.4004	60.5463	1.01929
	2345			Subtracted			1.1459
5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]	977	TYRP1			61.9129	65.3733	3.4604
	981			Divided			1.05589
	1002		Ranked	Subtracted	221.278	214.409	6.869
	1021			Divided			1.03204
	1152		Measured	Subtracted	5998.69	6509.74	511.05
	1229			Divided			1.08519
	1569		Squared	Subtracted	30116.4	32683.2	2566.8
	2161			Divided			1.08523
5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [swissprot;acc:p22557]	618	ALAS2		Subtracted	27407.7	31927.7	4520
	786			Divided			1.16492
	1577		Measured	Subtracted	6858.84	7287.27	428.43
	1910			Divided			1.06246
	2253		Rooted	Subtracted	70.5239	71.8706	1.3467
	2312			Divided			1.0191
	2491		Ranked		194.527	195.08	1.00284
	2502			Subtracted			0.553
5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196]	623	ALAS1	Squared		27407.7	31927.7	4520
	791			Divided			1.16492
	1583		Measured	Subtracted	6858.84	7287.27	428.43
	1915			Divided			1.06246
	2258		Rooted	Subtracted	70.5239	71.8706	1.3467
	2317			Divided			1.0191
	2496		Ranked		194.527	195.08	1.00284
	2507			Subtracted			0.553
5-formyltetrahydrofolate cyclo-ligase (ec 6.3.3.2) (5,10-methenyl- tetrahydrofolate synthetase) (methenyl-thf synthetase) (mthfs). [swissprot;acc:p49914]	1284	MTHFS	Squared		27290.4	30221.1	2930.7
	1635			Divided			1.10739
	1726		Measured	Subtracted	6175.23	6572.85	397.62
	1833			Divided			1.06439
	2057		Rooted	Subtracted	64.8399	66.4806	1.6407
	2095			Divided			1.0253
	2754		Ranked		210.638	210.642	1.00002
				Subtracted			0.004
5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]	791	MTR	Squared		26005.2	30020.3	4015.1
	941			Divided			1.1544
	1094		Measured	Subtracted	5795.13	6314.19	519.06
	1115			Divided			1.08957
	1362		Rooted		61.5231	64.0358	1.04084

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.