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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 601 to 650 of 38536 in total

Network Comparison Type  : Divided

description	Rank	green	Filtered	Value Type	Interaction Map	red	network_comparison
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]	1745	222.215	1	Ranked	High confidence	219.423	1.01272
	2352	61.9962		Rooted		60.9091	1.01785
	2696	193.541		Ranked	Low confidence	196.941	1.01757
	4943	48349.1		Squared		48134.6	1.00446
4-hydroxyphenylpyruvate dioxygenase (ec 1.13.11.27) (4hppd) (hpd) (hppdase). [swissprot;acc:p32754]	1057	74.502		Rooted		71.724	1.03873
	1132	8336.19		Measured		8039.62	1.03689
	1159	198.786		Ranked		203.422	1.02332
	4625	45456.1		Squared		46235.3	1.01714
40 kda peptidyl-prolyl cis-trans isomerase (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin-40) (cyp-40) (cyclophilin-related protein). [swissprot;acc:q08752]	1110	8628.8		Measured		8320.39	1.03707
	2376	76.2777		Rooted		73.7734	1.03395
	3251	194.871		Ranked		197.955	1.01583
	4792	46667.2		Squared		47191.9	1.01124
40s ribosomal protein s10. [swissprot;acc:p46783]	219	5302.97	0			6783.9	1.27926
	436	17.5674		Rooted		18.8324	1.07201
	488	13169.5		Ranked		12419	1.06043
	513	1135.73		Measured		1201.47	1.05788
	2273	44372	1	Squared		46093.2	1.03879
	3069	8233.31		Measured		8010.65	1.0278
	3077	74.0638		Rooted		71.7722	1.03193
	3263	199.593		Ranked		202.739	1.01576
40s ribosomal protein s11. [swissprot;acc:p04643]	278	267.088			High confidence	241.399	1.10642
	335	45.5342		Rooted		50.4705	1.10841
	1873	3402.09		Measured		3618.46	1.0636
	1939	39527.9		Squared	Low confidence	41135.5	1.04067
	2016	13514			High confidence	12389	1.09081
	3606	210.891		Ranked	Low confidence	207.913	1.01432
	4707	7472.14		Measured		7369.62	1.01391
	4898	69.4847		Rooted		68.7371	1.01088
40s ribosomal protein s12. [swissprot;acc:p25398]	560	11494.2	0	Ranked		12021.5	1.04588
	567	24.3289		Rooted		23.3643	1.04129
	661	2194.28		Measured		2140.77	1.025
	730	20717.3		Squared		21189.8	1.02281
	3133	42497.6	1			43974.9	1.03476
	3276	7995.94		Measured		7785.76	1.027
	3859	72.9222		Rooted		70.9166	1.02828
	4261	201.631		Ranked		203.546	1.0095
40s ribosomal protein s13. [swissprot;acc:q02546]	776	25607.9		Squared	High confidence	21976	1.16527
	1498	5818.7		Measured		5414.98	1.07456
	1722	223.813		Ranked		220.899	1.01319
	2348	61.6019		Rooted		60.5137	1.01798
	2851	8262.44		Measured	Low confidence	8031.31	1.02878
	3405	74.2382		Rooted		72.0347	1.03059
	3619	44427.7		Squared		45834.3	1.03166
	3777	199.227		Ranked		201.886	1.01335
40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	386	264.11			High confidence	242.238	1.09029
	530	46.6413		Rooted		50.6537	1.08603
	1823	14424.1		Squared		13145.4	1.09727
	2030	40034.4			Low confidence	41640.7	1.04012
	2436	3584.47		Measured	High confidence	3708.67	1.03465
	4334	7571.79			Low confidence	7425.75	1.01967

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.