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

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Showing element 501 to 550 of 77072 in total

description	Filtered	green	red	Rank	Value Type	network_comparison	Interaction Map	Network Comparison Type
26s protease regulatory subunit 8 (proteasome subunit p45) (thyroid hormone receptor interacting protein 1) (trip1) (msug1 protein) (tat-binding protein homolog 10) (tbp10) (p45/sug). [swissprot;acc:p47210]	1	197.22	200.982	2149	Ranked	3.762	Low confidence	Subtracted
				2163		1.01908		Divided
		199.408	202.358	1637		1.01479	High confidence
				1682		2.95		Subtracted
		8314.51	8088.94	2944	Measured	225.57	Low confidence
				3044		1.02789		Divided
		9234.09	9150.44	2602		83.65	High confidence	Subtracted
				2651		1.00914		Divided
		44326.9	46535.2	797	Squared	2208.3	Low confidence	Subtracted
				864		1.04982		Divided
		53788.1	59318.4	453		5530.3	High confidence	Subtracted
				1721		1.10282		Divided
26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524]		64.5421	62.7515	1944	Rooted	1.02853
				1968		1.7906		Subtracted
		74.8438	72.5509	3092		2.2929	Low confidence
				3167		1.0316		Divided
		197.374	200.312	3515	Ranked	1.01489
				3521		2.938		Subtracted
		216.801	216.177	2478		1.00289	High confidence	Divided
				2486		0.624		Subtracted
		6349.04	5923.66	1577	Measured	1.07181		Divided
				1599		425.38		Subtracted
		8326.51	8088.12	2526		238.39	Low confidence
				2711		1.02947		Divided
		30113.9	27176.8	1280	Squared	2937.1	High confidence	Subtracted
				1630		1.10807		Divided
		44345.7	45773.6	3429		1427.9	Low confidence	Subtracted
				3537		1.0322		Divided
26s proteasome non-atpase regulatory subunit 1 (26s proteasome regulatory subunit s1) (26s proteasome subunit p112). [swissprot;acc:q99460]		63.5033	62.0038	2129	Rooted	1.02418	High confidence
				2140		1.4995		Subtracted
		73.5808	70.8788	1162		1.03812	Low confidence	Divided
				1280		2.702		Subtracted
		199.229	204.36	830	Ranked	5.131
				857		1.02575		Divided
		219.434	218.555	2355		0.879	High confidence	Subtracted
				2368		1.00402		Divided
		6195.48	5826	1862	Measured	369.48		Subtracted
				1883		1.06342		Divided
		8063.51	7825.14	2447		1.03046	Low confidence
				2527		238.37		Subtracted
		29969	26860.7	1182	Squared	3108.3	High confidence
				1476		1.11572		Divided
		42544.1	44506	1146		1.04611	Low confidence
				1379		1961.9		Subtracted
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	0	23.2445	23.11	793	Rooted	1.00582		Divided
				797		0.1345		Subtracted
		32.0298	30.7424	335		1.2874	High confidence
				370		1.04188		Divided
		1609.88	1593.68	762	Measured	16.2	Low confidence	Subtracted
				771		1.01017		Divided

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.