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

Results: HTML CSV LaTeX

Showing element 551 to 600 of 7460 in total

Value Type  : Measured
Interaction Map  : High confidence

description	Rank	Network Comparison Type	Filtered	red	network_comparison	green
adp-ribosylation factor 4. [swissprot;acc:p18085]	1819	Divided	1	5633.44	1.06454	5997
	1887	Subtracted			363.56
adp-ribosylation factor gtpase activating protein 1 (adp-ribosylation factor 1 gtpase activating protein) (arf1 gap) (arf1-directed gtpase- activating protein) (gap protein). [swissprot;acc:q8n6t3]	768			6654.42	642.09	7296.51
	982	Divided			1.09649
adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	13		0	1363	29	47
		Subtracted			1316
	1830	Divided	1	5633.44	1.06454	5997
	1898	Subtracted			363.56
adp-ribosylation factor-like protein 1. [swissprot;acc:p40616]	1573			6035.6	428.9	6464.5
	1619	Divided			1.07106
adp-ribosylation factor-like protein 3. [swissprot;acc:p36405]	1530	Subtracted		5916.05	434.48	6350.53
	1534	Divided			1.07344
adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]	821	Subtracted		5912.84	604.85	6517.69
	883	Divided			1.10229
adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]	195		0	23	1.21053	19
	464	Subtracted			4
	819		1	5912.84	604.85	6517.69
	881	Divided			1.10229
adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109]	298	Subtracted		8268.19	1137.66	9405.85
	548	Divided			1.13759
af-6 protein. [swissprot;acc:p55196]	2043	Subtracted		5746.65	320.62	6067.27
	2076	Divided			1.05579
afg3-like protein 2 (ec 3.4.24.-) (paraplegin-like protein). [swissprot;acc:q9y4w6]	1543			5466	1.07306	5865.33
	1709	Subtracted			399.33
aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488]	1132			5790.65	513.28	6303.93
	1141	Divided			1.08864
aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154]	1131					6303.92
	1136	Subtracted			513.27
ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [swissprot;acc:o00170]	1904	Divided		5204.25	1.06261	5530.11
	2014	Subtracted			325.86
alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	412		0	1527.36	22.51	1504.85
	452	Divided			1.01496
	2224	Subtracted	1	6956.62	266.47	7223.09
	2415	Divided			1.0383
alanine aminotransferase 2; glutamic-pyruvate transaminase 2. [refseq;acc:nm_133443]	2215	Subtracted		6956.32	266.82	7223.14
	2414	Divided			1.03836
alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588]	2599			4367.69	1.01627	4438.77
	2634	Subtracted			71.08
alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766]	127		0	2017.91	258.69	1759.22
	231	Divided			1.14705
	2047	Subtracted	1	6834.03	319.63	7153.66
	2249	Divided			1.04677
aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	3222			0.00001	1	0.00001
		Subtracted		0	0	0
aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]	195		0	1475.05	162.14	1312.91
	266	Divided			1.1235
	2992		1	0.00001	1	0.00001
		Subtracted		0	0	0
aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]	2960	Divided		0.00001	1	0.00001
		Subtracted		0	0	0

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.