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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 77072 in total

description	Filtered	Value Type	Rank	Network Comparison Type	green	network_comparison	Interaction Map	red
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	Ranked	1637	Divided	199.408	1.01479	High confidence	202.358
			1682	Subtracted		2.95
			2149		197.22	3.762	Low confidence	200.982
			2163	Divided		1.01908
		Squared	453	Subtracted	53788.1	5530.3	High confidence	59318.4
			797		44326.9	2208.3	Low confidence	46535.2
			864	Divided		1.04982
			1721		53788.1	1.10282	High confidence	59318.4
		Rooted	1772	Subtracted	76.9113	1.9751		74.9362
			2059	Divided		1.02636
			2260	Subtracted	74.792	2.4749	Low confidence	72.3171
			2297	Divided		1.03422
26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524]		Measured	1577		6349.04	1.07181	High confidence	5923.66
			1599	Subtracted		425.38
			2526		8326.51	238.39	Low confidence	8088.12
			2711	Divided		1.02947
		Ranked	2478		216.801	1.00289	High confidence	216.177
			2486	Subtracted		0.624
			3515	Divided	197.374	1.01489	Low confidence	200.312
			3521	Subtracted		2.938
		Squared	1280		30113.9	2937.1	High confidence	27176.8
			1630	Divided		1.10807
			3429	Subtracted	44345.7	1427.9	Low confidence	45773.6
			3537	Divided		1.0322
		Rooted	1944		64.5421	1.02853	High confidence	62.7515
			1968	Subtracted		1.7906
			3092		74.8438	2.2929	Low confidence	72.5509
			3167	Divided		1.0316
26s proteasome non-atpase regulatory subunit 1 (26s proteasome regulatory subunit s1) (26s proteasome subunit p112). [swissprot;acc:q99460]		Measured	1862	Subtracted	6195.48	369.48	High confidence	5826
			1883	Divided		1.06342
			2447		8063.51	1.03046	Low confidence	7825.14
			2527	Subtracted		238.37
		Ranked	830		199.229	5.131		204.36
			857	Divided		1.02575
			2355	Subtracted	219.434	0.879	High confidence	218.555
			2368	Divided		1.00402
		Squared	1146		42544.1	1.04611	Low confidence	44506
			1182	Subtracted	29969	3108.3	High confidence	26860.7
			1379		42544.1	1961.9	Low confidence	44506
			1476	Divided	29969	1.11572	High confidence	26860.7
		Rooted	1162		73.5808	1.03812	Low confidence	70.8788
			1280	Subtracted		2.702
			2129	Divided	63.5033	1.02418	High confidence	62.0038
			2140	Subtracted		1.4995
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	0	Measured	380		2642.79	40.82		2683.61
			451	Divided		1.01545
			762	Subtracted	1609.88	16.2	Low confidence	1593.68
			771	Divided		1.01017
		Ranked	378	Subtracted	10806	422.4	High confidence	11228.4
			379	Divided		1.03909

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.