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

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Showing element 1 to 50 of 38536 in total

Filtered  : 0
Network Comparison Type  : Divided

description	Interaction Map	Value Type	Rank	green	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	High confidence	Measured	37	934.348	334.401	2.79409
		Ranked	242	13895.8	15260.6	1.09822
		Squared	37	1034.13	101.05	10.2338
		Rooted	53	18.0183	11.844	1.5213
	Low confidence	Measured	131	851.77	645.504	1.31954
		Ranked	629	13590.3	13205.3	1.02915
		Squared	146	1268.51	775.72	1.63527
		Rooted	537	17.0804	16.298	1.04801
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829]		Measured	778	4869.42	4825.89	1.00902
		Ranked	627	10050.9	10347.7	1.02953
		Squared	815	40451	40270.8	1.00447
		Rooted	768	39.5126	39.0982	1.0106
25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	High confidence	Measured	19	26.1599	305.45	11.6763
		Ranked	47	18499.2	12941.7	1.42943
		Squared	26	0.344399	44.3683	128.828
		Rooted		3.80565	13.7805	3.62106
	Low confidence	Measured	171	181.734	222.779	1.22585
		Ranked	384	14695.2	13533.1	1.08587
		Squared	697	296.481	307.765	1.03806
		Rooted	131	9.42485	11.365	1.20585
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	High confidence	Measured	451	2642.79	2683.61	1.01545
		Ranked	379	10806	11228.4	1.03909
		Squared	316	7355.46	8620.27	1.17196
		Rooted	370	32.0298	30.7424	1.04188
	Low confidence	Measured	771	1609.88	1593.68	1.01017
		Ranked	825	11854.2	11832.8	1.00181
		Squared	763	6490.54	6603.33	1.01738
		Rooted	793	23.2445	23.11	1.00582
26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232]	High confidence	Measured	474	2263.85	2281.12	1.00763
		Ranked	495	11748.1	11725.2	1.00195
		Squared	328	5878.56	6747.71	1.14785
		Rooted	458	28.5146	28.0847	1.01531
	Low confidence	Measured	785	2331.31	2349.9	1.00797
		Ranked	665	11538	11801.6	1.02285
		Squared	591	14694	15800.9	1.07533
		Rooted	728	26.5693	26.1642	1.01548
3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	High confidence	Measured	492	5046.33	5038.33	1.00159
		Ranked	299	11512.3	12338.7	1.07178
		Squared	493	17901.1	17901.1	1
		Rooted	438	44.9836	43.8864	1.025
	Low confidence	Measured	822	5046.33	5038.33	1.00159
		Ranked	453	11512.3	12338.7	1.07178
		Squared	836	17901.1	17901.1	1
		Rooted	662	44.9836	43.8864	1.025
3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	High confidence	Measured	438	2853.65	2925.57	1.0252
		Ranked	327	10466.5	9897.29	1.05751
		Squared	477	18218.3	18353.1	1.0074
		Rooted	376	31.1453	32.3671	1.03923
	Low confidence	Measured	581	1932.95	2015.65	1.04278
		Ranked	501	11352.1	10721.7	1.0588

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.