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 1751 to 1800 of 3228 in total

Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	red	green	network_comparison
1751	60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993]	6011.57	6414.98	1.06711
1752	copper-transporting atpase 1 (ec 3.6.3.4) (copper pump 1) (menkes disease-associated protein). [swissprot;acc:q04656]	5941.29	6339.93	1.0671
1753	eukaryotic translation initiation factor 2 subunit 2 (eukaryotic translation initiation factor 2 beta subunit) (eif-2-beta). [swissprot;acc:p20042]	5423.67	5787.46	1.06707
1754	copper-transporting atpase 2 (ec 3.6.3.4) (copper pump 2) (wilson disease-associated protein). [swissprot;acc:p35670]	5941.83	6340.32
1755	chromodomain y-like protein 2. [refseq;acc:nm_152342]	7101.7	7577.75	1.06703
1756	40s ribosomal protein s29. [swissprot;acc:p30054]	3582.57	3357.6	1.067
1757	testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8]	7101.15	7576.84	1.06699
1758	chromodomain protein, y chromosome-like isoform a; cdy-like, autosomal; testis-specific chromodomain y-like protein. [refseq;acc:nm_004824]
1759	testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7]	7101.16	7576.87
1760	thioredoxin interacting protein; upregulated by 1,25-dihydroxyvitamin d-3. [refseq;acc:nm_006472]	5693.88	6075.25	1.06698
1761	electron transfer flavoprotein beta-subunit (beta-etf). [swissprot;acc:p38117]	7794.41	8316.04	1.06692
1762	tumor susceptibility gene 101 protein. [swissprot;acc:q99816]	6122.76	6531.3	1.06672
1763	dystrobrevin alpha (dystrobrevin-alpha). [swissprot;acc:q9y4j8]	5829.73	6218.45	1.06668
1764	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	1.06667
1765	beta-2-syntrophin (59 kda dystrophin-associated protein a1, basic component 2) (syntrophin 3) (snt3) (syntrophin-like) (sntl). [swissprot;acc:q13425]
1766	nitrilase 1. [refseq;acc:nm_005600]
1767	utrophin (dystrophin-related protein 1) (drp1) (drp). [swissprot;acc:p46939]
1768	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]
1769	dystrophin. [swissprot;acc:p11532]
1770	angiomotin. [refseq;acc:nm_133265]
1771	angiomotin like 2; leman coiled-coil protein; angiomotin-like protein 2. [refseq;acc:nm_016201]
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]
1773	dystrobrevin beta (beta-dystrobrevin) (dtn-b). [swissprot;acc:o60941]	5829.51	6218.11	1.06666
1774	dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]	5386.37	5744.89	1.06656
1775	zinc finger protein 258. [refseq;acc:nm_145310]
1776	zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202]
1777	zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095]
1778	actin-like protein 2 (actin-related protein 2). [swissprot;acc:o15142]
1779	conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2]
1780	similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2]
1781	arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]
1782	zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7]
1783	actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]
1784	arp2/3 complex 21 kda subunit (p21-arc) (actin-related protein 2/3 complex subunit 3). [swissprot;acc:o15145]
1785	nardilysin precursor (ec 3.4.24.61) (n-arginine dibasic convertase) (nrd convertase) (nrd-c). [swissprot;acc:o43847]
1786	actin-related protein 2/3 complex subunit 1a (sop2-like protein). [swissprot;acc:q92747]
1787	interferon-related developmental regulator 2 (skmc15 protein). [swissprot;acc:q12894]	5386.48	5744.78	1.06652
1788	arp2/3 complex 16 kda subunit (p16-arc) (actin-related protein 2/3 complex subunit 5). [swissprot;acc:o15511]	5386.49	5744.76	1.06651
1789	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]	5839.72	6227.33	1.06637
1790	kinesin-like protein kif23 (mitotic kinesin-like protein-1) (kinesin- like protein 5). [swissprot;acc:q02241]
1791	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]
1792	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]
1793	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]
1794	epsin 2 isoform b; eps15 binding protein. [refseq;acc:nm_014964]	5948.26	6342.84	1.06634
1795	dna-directed rna polymerases iii 12.5 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c11 subunit) (hsc11p) (hrpc11) (my010 protein). [swissprot;acc:q9y2y1]	5501.3	5866.02	1.0663
1796	tubulin tyrosine ligase-like protein hottl (hqp0207). [swissprot;acc:q9y4r7]	5387.64	5743.5	1.06605
1797	valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640]	5096.02	5432.63
1798	60s ribosomal protein l32. [swissprot;acc:p02433]	3618.02	3394.29	1.06591
1799	translation initiation factor eif-2b beta subunit (eif-2b gdp-gtp exchange factor) (s20i15) (s20iii15). [swissprot;acc:p49770]	5456.57	5816.14	1.0659
1800	translation initiation factor eif-2b delta subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9ui10]	5424.3	5781.58	1.06587

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.