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

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Showing element 1 to 50 of 38536 in total

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Network Comparison Type  : Divided

description	green	Interaction Map	Value Type	Rank	red	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	17.0804	Low confidence	Rooted	537	16.298	1.04801
	18.0183	High confidence		53	11.844	1.5213
	851.77	Low confidence	Measured	131	645.504	1.31954
	934.348	High confidence		37	334.401	2.79409
	1034.13		Squared		101.05	10.2338
	1268.51	Low confidence		146	775.72	1.63527
	13590.3		Ranked	629	13205.3	1.02915
	13895.8	High confidence		242	15260.6	1.09822
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829]	39.5126	Low confidence	Rooted	768	39.0982	1.0106
	4869.42		Measured	778	4825.89	1.00902
	10050.9		Ranked	627	10347.7	1.02953
	40451		Squared	815	40270.8	1.00447
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]	0.344399	High confidence		26	44.3683	128.828
	3.80565		Rooted		13.7805	3.62106
	9.42485	Low confidence		131	11.365	1.20585
	26.1599	High confidence	Measured	19	305.45	11.6763
	181.734	Low confidence		171	222.779	1.22585
	296.481		Squared	697	307.765	1.03806
	14695.2		Ranked	384	13533.1	1.08587
	18499.2	High confidence		47	12941.7	1.42943
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	23.2445	Low confidence	Rooted	793	23.11	1.00582
	32.0298	High confidence		370	30.7424	1.04188
	1609.88	Low confidence	Measured	771	1593.68	1.01017
	2642.79	High confidence		451	2683.61	1.01545
	6490.54	Low confidence	Squared	763	6603.33	1.01738
	7355.46	High confidence		316	8620.27	1.17196
	10806		Ranked	379	11228.4	1.03909
	11854.2	Low confidence		825	11832.8	1.00181
26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232]	26.5693		Rooted	728	26.1642	1.01548
	28.5146	High confidence		458	28.0847	1.01531
	2263.85		Measured	474	2281.12	1.00763
	2331.31	Low confidence		785	2349.9	1.00797
	5878.56	High confidence	Squared	328	6747.71	1.14785
	11538	Low confidence	Ranked	665	11801.6	1.02285
	11748.1	High confidence		495	11725.2	1.00195
	14694	Low confidence	Squared	591	15800.9	1.07533
3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	44.9836	High confidence	Rooted	438	43.8864	1.025
		Low confidence		662
	5046.33	High confidence	Measured	492	5038.33	1.00159
		Low confidence		822
	11512.3	High confidence	Ranked	299	12338.7	1.07178
		Low confidence		453
	17901.1	High confidence	Squared	493	17901.1	1
		Low confidence		836
3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	25.4539		Rooted	442	27.2263	1.06963
	31.1453	High confidence		376	32.3671	1.03923
	1932.95	Low confidence	Measured	581	2015.65	1.04278
	2853.65	High confidence		438	2925.57	1.0252
	10466.5		Ranked	327	9897.29	1.05751
	10485.1	Low confidence	Squared	703	10851.4	1.03494

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.