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

Results: HTML CSV LaTeX

Showing element 601 to 650 of 38536 in total

Network Comparison Type  : Divided

Rank	Value Type	description	Filtered	green	network_comparison	Interaction Map	red
38	Squared	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	0	0.52284	9.25713	High confidence	4.84
		melanoma antigen, family b, 6. [refseq;acc:nm_173523]	1	61881.5	1.33073	Low confidence	82347.8
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	0	0.355148	9.62112		3.41692
		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	1	192141	1.80879	High confidence	106226
	Rooted	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]		59.166	1.14428	Low confidence	51.7058
		guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]		24.3692	1.65292	High confidence	40.2804
		melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	0	5.80679	1.69589	Low confidence	9.84765
		spir-2 protein (fragment). [sptrembl;acc:q8wwl2]		6.97663	1.92709	High confidence	3.62029
39	Measured	eferin. [swissprot;acc:o75154]	1	8696.7	1.17403	Low confidence	7407.56
		guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]		907.903	2.02312	High confidence	1836.8
		melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	0	35.5	2.97183	Low confidence	105.5
		microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]		192.295	2.50878	High confidence	482.426
	Ranked	blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526]		8270.5	1.36509	Low confidence	11290
		ero1-like. [refseq;acc:nm_014584]		20536	1.48242	High confidence	13853
		glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	1	282.937	1.14456	Low confidence	247.202
		protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]		253	1.27273	High confidence	322
	Squared	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	0	0.355148	9.62112	Low confidence	3.41692
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	1	61881.5	1.33073		82347.8
		mitochondrial solute carrier protein. [refseq;acc:nm_145305]		192141	1.80879	High confidence	106226
		zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	0	5.33358	8.22384		43.8625
	Rooted	dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985]	1	55.8176	1.13614	Low confidence	63.4164
		guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]		24.37	1.65285	High confidence	40.28
		melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	0	5.80678	1.69589	Low confidence	9.84765
		potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]		14.4058	1.82337	High confidence	7.90063
40	Measured	fos-related antigen 2. [swissprot;acc:p15408]	1	7600.25	1.17277	Low confidence	6480.59
		guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898]		907.978	2.02297	High confidence	1836.81
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	0	35.5	2.97183	Low confidence	105.5
		nanos (fragment). [sptrembl;acc:q8wy41]		151	2.49669	High confidence	377
	Ranked	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	1	253	1.27273		322
		filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	0	5699	1.48218		3845
		glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]		15924	1.35397	Low confidence	11761
		son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	1	223.538	1.14245		255.382
	Squared	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]		81169.7	1.78564	High confidence	144940
		heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	0	0.742249	7.86		5.83408
		melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	1	61881.5	1.33073	Low confidence	82347.8
		melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	0	0.355148	9.62112		3.41692
	Rooted	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]		13.5647	1.80277	High confidence	24.454
		guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898]	1	24.3705	1.65281		40.2797
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	0	5.80678	1.69589	Low confidence	9.84765
		protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	1	63.2842	1.13601		55.7075
41	Measured	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]		907.978	2.02297	High confidence	1836.81
		melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	0	35.5	2.97183	Low confidence	105.5
		nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]		645	2.42481	High confidence	266
		protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	1	7600.61	1.17264	Low confidence	6481.62
	Ranked	60s ribosomal protein l21. [swissprot;acc:p46778]	0	6758.83	1.47871	High confidence	9994.33
		ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	1	200.55	1.13761	Low confidence	228.147
		nadh-ubiquinone oxidoreductase mlrq subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-mlrq) (ci-mlrq). [swissprot;acc:o00483]	0	6435	1.34499		8655
		protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	1	253	1.27273	High confidence	322
	Squared	dystrophin. [swissprot;acc:p11532]	0	12.5624	7.83299		98.4011
		melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	1	61881.5	1.33073	Low confidence	82347.8

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.