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 1432 to 1481 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Rank	Hugo	Value Type	Network Comparison Type	red	green	network_comparison
activated p21cdc42hs kinase. [refseq;acc:nm_005781]	2341	TNK2	Ranked	Divided	229.258	230.294	1.00452
activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375]	482	ABT1	Squared	Subtracted	31406.6	36662.8	5256.2
	744			Divided			1.16736
	932		Measured	Subtracted	6281.21	6837.61	556.4
	1068		Rooted	Divided	63.2689	66.4479	1.05025
	1081			Subtracted			3.179
	1137		Ranked		219.399	213.784	5.615
	1146		Measured	Divided	6281.21	6837.61	1.08858
	1169		Ranked		219.399	213.784	1.02626
activator of camp-responsive element modulator (crem) in testis; lim protein act. [refseq;acc:nm_020482]	1044	FHL5		Subtracted	269.157	275.531	6.374
	1303			Divided			1.02368
	2435		Measured		3669.33	3797.78	1.03501
	2517			Subtracted			128.45
	2601		Squared		18770.1	18133.6	636.5
	2618			Divided			1.0351
	2638		Rooted		45.0363	45.3246	1.0064
	2671			Subtracted			0.2883
activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259]	1288	ACVR1C	Ranked		223.884	228.795	4.911
	1366			Divided			1.02194
	1974		Squared	Subtracted	24292.9	26394.5	2101.6
	2143			Divided			1.08651
	2160		Measured		5379.55	5660.25	1.05218
	2192			Subtracted			280.7
	2583		Rooted	Divided	59.5216	60.0368	1.00866
	2586			Subtracted			0.5152
activin receptor type i precursor (ec 2.7.1.37) (actr-i) (serine/threonine-protein kinase receptor r1) (skr1) (activin receptor-like kinase 2) (alk-2) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:q04771]	3050	ACVR1	Measured	Divided	0.00001	0.00001	1
				Subtracted	0	0	0
			Ranked	Divided	0.00001	0.00001	1
				Subtracted	0	0	0
			Squared	Divided	0.00001	0.00001	1
				Subtracted	0	0	0
			Rooted	Divided	0.00001	0.00001	1
				Subtracted	0	0	0
acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561]	625	NDUFAB1	Squared		27407.7	31927.7	4520
	793			Divided			1.16492
	1585		Measured	Subtracted	6858.84	7287.27	428.43
	1917			Divided			1.06246
	2260		Rooted	Subtracted	70.5239	71.8706	1.3467
	2319			Divided			1.0191
	2498		Ranked		194.527	195.08	1.00284
	2509			Subtracted			0.553
acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310]	1412	ACADM			206.102	210.42	4.318
	1413			Divided			1.02095
	2578		Measured	Subtracted	6380.61	6476.19	95.58
	2582		Squared		28128.8	28940.3	811.5
	2612		Measured	Divided	6380.61	6476.19	1.01498
	2635		Squared		28128.8	28940.3	1.02885
	2748		Rooted		66.3015	66.2977	1.00006
	2749			Subtracted			0.0038
acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954]	1266	no value	Squared		31054.8	34018.5	2963.7

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.