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

Results: HTML CSV LaTeX

Showing element 3508 to 3557 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
1754	gdp-mannose pyrophosphorylase a; mannose-1-phosphate guanylyltransferase (gdp). [refseq;acc:nm_013335]	Subtracted	5283.8	5673.81	390.01
1755	aspartyl-trna synthetase (ec 6.1.1.12) (aspartate--trna ligase) (asprs). [swissprot;acc:p14868]		6766.45	7155.54	389.09
	chromodomain y-like protein 2. [refseq;acc:nm_152342]	Divided	7101.7	7577.75	1.06703
1756	40s ribosomal protein s29. [swissprot;acc:p30054]		3582.57	3357.6	1.067
	dystrobrevin alpha (dystrobrevin-alpha). [swissprot;acc:q9y4j8]	Subtracted	5829.73	6218.45	388.72
1757	beta-1-syntrophin (59 kda dystrophin-associated protein a1, basic component 1) (dapa1b) (tax interaction protein 43) (tip-43) (syntrophin 2) (bsyn2). [swissprot;acc:q13884]		5829.61	6218.27	388.66
	testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8]	Divided	7101.15	7576.84	1.06699
1758	beta-2-syntrophin (59 kda dystrophin-associated protein a1, basic component 2) (syntrophin 3) (snt3) (syntrophin-like) (sntl). [swissprot;acc:q13425]	Subtracted	5829.61	6218.27	388.66
	chromodomain protein, y chromosome-like isoform a; cdy-like, autosomal; testis-specific chromodomain y-like protein. [refseq;acc:nm_004824]	Divided	7101.15	7576.84	1.06699
1759	nitrilase 1. [refseq;acc:nm_005600]	Subtracted	5829.61	6218.27	388.66
	testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7]	Divided	7101.16	7576.87	1.06699
1760	thioredoxin interacting protein; upregulated by 1,25-dihydroxyvitamin d-3. [refseq;acc:nm_006472]		5693.88	6075.25	1.06698
	utrophin (dystrophin-related protein 1) (drp1) (drp). [swissprot;acc:p46939]	Subtracted	5829.61	6218.27	388.66
1761	electron transfer flavoprotein beta-subunit (beta-etf). [swissprot;acc:p38117]	Divided	7794.41	8316.04	1.06692
	lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial precursor (ec 2.3.1.-) (e2) (dihydrolipoamide branched chain transacylase) (bckad e2 subunit). [swissprot;acc:p11182]	Subtracted	5829.61	6218.27	388.66
1762	dystrophin. [swissprot;acc:p11532]
	tumor susceptibility gene 101 protein. [swissprot;acc:q99816]	Divided	6122.76	6531.3	1.06672
1763	angiomotin. [refseq;acc:nm_133265]	Subtracted	5829.61	6218.27	388.66
	dystrobrevin alpha (dystrobrevin-alpha). [swissprot;acc:q9y4j8]	Divided	5829.73	6218.45	1.06668
1764	angiomotin like 2; leman coiled-coil protein; angiomotin-like protein 2. [refseq;acc:nm_016201]	Subtracted	5829.61	6218.27	388.66
	beta-1-syntrophin (59 kda dystrophin-associated protein a1, basic component 1) (dapa1b) (tax interaction protein 43) (tip-43) (syntrophin 2) (bsyn2). [swissprot;acc:q13884]	Divided			1.06667
1765	alpha-1-syntrophin (59 kda dystrophin-associated protein a1, acidic component 1) (pro-tgf-alpha cytoplasmic domain-interacting protein 1) (tacip1) (syntrophin 1). [swissprot;acc:q13424]	Subtracted			388.66
	beta-2-syntrophin (59 kda dystrophin-associated protein a1, basic component 2) (syntrophin 3) (snt3) (syntrophin-like) (sntl). [swissprot;acc:q13425]	Divided			1.06667
1766	dystrobrevin beta (beta-dystrobrevin) (dtn-b). [swissprot;acc:o60941]	Subtracted	5829.51	6218.11	388.6
	nitrilase 1. [refseq;acc:nm_005600]	Divided	5829.61	6218.27	1.06667
1767	serine/threonine protein kinase 12 (ec 2.7.1.37) (aurora- and ipl1- like midbody-associated protein 1) (aim-1) (aurora/ipl1-related kinase 2) (aurora-related kinase 2) (stk-1) (aurora-b). [swissprot;acc:q96gd4]	Subtracted	5839.72	6227.33	387.61
	utrophin (dystrophin-related protein 1) (drp1) (drp). [swissprot;acc:p46939]	Divided	5829.61	6218.27	1.06667
1768	kinesin-like protein kif23 (mitotic kinesin-like protein-1) (kinesin- like protein 5). [swissprot;acc:q02241]	Subtracted	5839.72	6227.33	387.61
	lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial precursor (ec 2.3.1.-) (e2) (dihydrolipoamide branched chain transacylase) (bckad e2 subunit). [swissprot;acc:p11182]	Divided	5829.61	6218.27	1.06667
1769	dystrophin. [swissprot;acc:p11532]
	serine/threonine protein kinase 13 (ec 2.7.1.37) (aurora/ipl1/eg2 protein 2) (aurora/ipl1-related kinase 3) (aurora-c). [swissprot;acc:q9uqb9]	Subtracted	5839.72	6227.33	387.61
1770	angiomotin. [refseq;acc:nm_133265]	Divided	5829.61	6218.27	1.06667
	serine/threonine kinase 6 (ec 2.7.1.37) (serine/threonine kinase 15) (aurora/ipl1-related kinase 1) (aurora-related kinase 1) (hark1) (aurora-a) (breast-tumor-amplified kinase). [swissprot;acc:o14965]	Subtracted	5839.72	6227.33	387.61
1771	angiomotin like 2; leman coiled-coil protein; angiomotin-like protein 2. [refseq;acc:nm_016201]	Divided	5829.61	6218.27	1.06667
	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]	Subtracted	5839.72	6227.33	387.61
1772	alpha-1-syntrophin (59 kda dystrophin-associated protein a1, acidic component 1) (pro-tgf-alpha cytoplasmic domain-interacting protein 1) (tacip1) (syntrophin 1). [swissprot;acc:q13424]	Divided	5829.61	6218.27	1.06667
	nucleolar protein nop5 (nucleolar protein 5) (nop58) (hspc120). [swissprot;acc:q9y2x3]	Subtracted	4338.49	4725.86	387.37
1773	dystrobrevin beta (beta-dystrobrevin) (dtn-b). [swissprot;acc:o60941]	Divided	5829.51	6218.11	1.06666
	epsin 1; eh domain-binding mitotic phosphoprotein. [refseq;acc:nm_013333]	Subtracted	5881.33	6268.57	387.24
1774	dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]	Divided	5386.37	5744.89	1.06656
	keratin associated protein 9.2. [refseq;acc:nm_031961]	Subtracted	6076.65	6463.64	386.99
1775	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]		6076.66	6463.15	386.49
	zinc finger protein 258. [refseq;acc:nm_145310]	Divided	5386.37	5744.89	1.06656
1776	keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	Subtracted	6076.66	6463.14	386.48
	zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202]	Divided	5386.37	5744.89	1.06656
1777	keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062]	Subtracted	6076.66	6463.14	386.48
	zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095]	Divided	5386.37	5744.89	1.06656
1778	actin-like protein 2 (actin-related protein 2). [swissprot;acc:o15142]
	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	Subtracted	6076.66	6463.14	386.48
1779	conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2]	Divided	5386.37	5744.89	1.06656

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.