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

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Showing element 551 to 600 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

description	Rank	Network Comparison Type	red	green	network_comparison
anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5]	2636	Divided	195.635	195.384	1.00128
	2639	Subtracted			0.251
anaphase-promoting complex subunit 10; anaphase-promoting complex 10. [refseq;acc:nm_014885]	2663	Divided	204.768	204.549	1.00107
	2667	Subtracted			0.219
anaphase-promoting complex subunit 2; anaphase-promoting complex 2. [refseq;acc:nm_013366]	2679	Divided	190.142	189.959	1.00096
	2682	Subtracted			0.183
androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	184		227.357	254.15	26.793
	240	Divided			1.11785
angiomotin like 2; leman coiled-coil protein; angiomotin-like protein 2. [refseq;acc:nm_016201]	2586		213.422	213.75	1.00154
		Subtracted			0.328
angiomotin. [refseq;acc:nm_133265]	2585	Divided			1.00154
		Subtracted			0.328
anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	143	Divided	59	49	1.20408
	773	Subtracted			10
ankyrin 2 (brain ankyrin) (ankyrin b) (ankyrin, nonerythroid). [swissprot;acc:q01484]	2516		215.835	216.341	0.506
	2519	Divided			1.00234
ankyrin 3 (ank-3) (ankyrin g). [swissprot;acc:q12955]	2515	Subtracted			0.506
	2518	Divided			1.00234
ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1]	793	Subtracted	212.386	221.785	9.399
	805	Divided			1.04425
annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [swissprot;acc:p50995]	1051	Subtracted	219.673	213.378	6.295
	1088	Divided			1.0295
annexin a7 (annexin vii) (synexin). [swissprot;acc:p20073]	1053	Subtracted	219.655	213.385	6.27
	1094	Divided			1.02938
antithrombin-iii precursor (atiii) (pro0309). [swissprot;acc:p01008]	2406	Subtracted	218.2	218.984	0.784
	2418	Divided			1.00359
apg3p; pc3-96 protein. [refseq;acc:nm_022488]	169		82.5916	98.0548	1.18722
	489	Subtracted			15.4632
apical-like protein (apxl protein). [swissprot;acc:q13796]	346		231.492	211.136	20.356
	362	Divided			1.09641
apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	211	Subtracted	237.302	212.41	24.892
	248	Divided			1.11719
apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	1606		207.916	204.662	1.0159
	1609	Subtracted			3.254
apolipoprotein b-100 precursor (apo b-100) [contains: apolipoprotein b-48 (apo b-48)]. [swissprot;acc:p04114]	2128		217.871	219.366	1.495
	2151	Divided			1.00686
apopain precursor (ec 3.4.22.-) (cysteine protease cpp32) (yama protein) (cpp-32) (caspase-3) (casp-3) (srebp cleavage activity 1) (sca-1). [swissprot;acc:p42574]	1166	Subtracted	233.942	228.46	5.482
	1293	Divided			1.024
apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	929	Subtracted	243.045	235.422	7.623
	1014	Divided			1.03238
apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595]	1094	Subtracted	218.484	212.675	5.809
	1132	Divided			1.02731
apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	1083	Subtracted	217.99	212.123	5.867
	1111	Divided			1.02766
apoptosis-inducing factor (aif)-homologous mitochondrion-associated inducer of death; p53-responsive gene 3. [refseq;acc:nm_032797]	2418	Subtracted	210.205	209.454	0.751
	2421	Divided			1.00359
apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [refseq;acc:nm_014481]	2523	Subtracted	216.264	215.787	0.477
	2531	Divided			1.00221
aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087]	2688	Subtracted	188.191	188.046	0.145
	2690	Divided			1.00077

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.