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

Results: HTML CSV LaTeX

Showing element 1001 to 1050 of 38536 in total

Network Comparison Type  : Divided

Rank	Value Type	description	Filtered	red	Interaction Map	green	network_comparison
63	Squared	core1 udp-galactose:n-acetylgalactosamine-alpha-r beta 1,3-galac. [refseq;acc:nm_020156]	1	73677.6	Low confidence	57498.7	1.28138
		melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]		219048	High confidence	129762	1.68808
		protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	0	1.24091		0.365145	3.3984
		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]		44.2067	Low confidence	173.307	3.92038
	Rooted	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]		18.1049	High confidence	12.6095	1.43581
		kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	1	43.4554		31.7576	1.36835
		selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	0	8.48528	Low confidence	12.2882	1.44818
		t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806]	1	61.4851		68.1264	1.10801
64	Measured	dna helicase homolog (fragment). [sptrembl;acc:q9y645]	0	48.2534		23.6984	2.03615
		glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	1	4489.19	High confidence	2765.82	1.6231
		phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]	0	0.00001		18	1800000
		retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	1	15464.1	Low confidence	17572.7	1.13635
	Ranked	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]		266.868	High confidence	336.159	1.25965
		selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	0	14463	Low confidence	11356	1.2736
		similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]		15264	High confidence	20387	1.33563
		transcription factor jun-d. [swissprot;acc:p17535]	1	202.709	Low confidence	183.361	1.10552
	Squared	melanoma antigen, family b, 6. [refseq;acc:nm_173523]		219048	High confidence	129762	1.68808
		neurochondrin. [refseq;acc:nm_014284]		73677.6	Low confidence	57498.7	1.28138
		sedlin. [swissprot;acc:o14582]	0	44.5387		173.244	3.88974
		tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]		50.8715	High confidence	15.2519	3.33542
	Rooted	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	1	63.8686		47.2654	1.35128
		anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	0	45.6289	Low confidence	66	1.44645
		muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]		15.7225	High confidence	22.5496	1.43422
		rab11-family interacting protein 4. [refseq;acc:nm_032932]	1	73.6221	Low confidence	81.4944	1.10693
65	Measured	bet5 homolog (multiple myeloma protein 2) (mum-2). [swissprot;acc:q9y5r8]	0	465.658		923.065	1.98228
		neuralized-like. [refseq;acc:nm_004210]	1	1657.68	High confidence	2690.25	1.6229
		rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]	0	18		0.00001	1800000
		septin 6. [swissprot;acc:q14141]	1	13005.8	Low confidence	14773.7	1.13593
	Ranked	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7]	0	10172.1		12943.5	1.27245
		e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409]		7853.67	High confidence	10406.3	1.32502
		guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	1	267.136		336.077	1.25807
		transcription factor jun-b. [swissprot;acc:p17275]		202.728	Low confidence	183.388	1.10546
	Squared	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]	0	50.642	High confidence	15.1833	3.33538
		l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338]		13.3089	Low confidence	47.3595	3.55848
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	1	219048	High confidence	129762	1.68808
		septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]		75490.8	Low confidence	95493.3	1.26497
	Rooted	60s ribosomal protein l21. [swissprot;acc:p46778]	0	20.5734	High confidence	29.2291	1.42072
		eferin. [swissprot;acc:o75154]	1	73.6221	Low confidence	81.4944	1.10693
		glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]		63.8686	High confidence	47.2654	1.35128
		transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193]	0	7.33436	Low confidence	10.4958	1.43105
66	Measured	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	1	1991.03	High confidence	3221.38	1.61795
		soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]	0	688.436		385.626	1.78524
		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	4900.7	Low confidence	5555.81	1.13368
		tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	0	271.484		142.981	1.89874
	Ranked	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	1	267.136	High confidence	336.077	1.25807
		heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	0	11461		15180	1.32449
		kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8]		7923.89	Low confidence	10030.4	1.26584
		mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749]	1	221.902		200.783	1.10518
	Squared	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	0	1797.76	High confidence	558.241	3.2204
		melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	1	219048		129762	1.68808

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.