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

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Showing element 1251 to 1300 of 3228 in total

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

green	Rank	description	red	network_comparison
5683	2622	suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]	5599.85	1.01485
5684.97	2496	solute carrier family 35, member b1; udp-galactose transporter related. [refseq;acc:nm_005827]	5534.46	1.0272
5687.2	1072	prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765]	5207.39	1.09214
	1073	prefoldin subunit 2 (hspc231). [swissprot;acc:q9uhv9]
	1074	uxt protein (ubiquitously expressed transcript protein) (hspc024). [swissprot;acc:q9ubk9]
5694.55	880	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	5166.04	1.1023
5694.99	96	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	4110.14	1.3856
5695.44	884	mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352]	5167.15	1.10224
5696.12	885	mitochondrial translational release factor 1-like. [refseq;acc:nm_019041]	5168.01	1.10219
5704.87	242	max protein. [swissprot;acc:p25912]	4640.26	1.22943
5706.64	2011	hyaluronan synthase 2 (ec 2.4.1.212) (hyaluronate synthase 2) (hyaluronic acid synthase 2) (ha synthase 2). [swissprot;acc:q92819]	5391.27	1.0585
	2012	hyaluronan synthase 1 (ec 2.4.1.212) (hyaluronate synthase 1) (hyaluronic acid synthase 1) (ha synthase 1) (huhas1). [swissprot;acc:q92839]
	2013	hyaluronan synthase 3 (ec 2.4.1.212) (hyaluronate synthase 3) (hyaluronic acid synthase 3) (ha synthase 3). [swissprot;acc:o00219]
5712.39	2576	protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6]	5608.22	1.01857
5712.59	2575	rho interacting protein 3. [refseq;acc:nm_015134]	5608.38	1.01858
5721.43	2394	trifunctional purine biosynthetic protein adenosine-3 [includes: phosphoribosylamine--glycine ligase (ec 6.3.4.13) (gars) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synthetase); phosphoribosylformylglycinamidine cyclo-ligase (ec 6.3.3.1) (airs) (phosphoribosyl-aminoimidazole synthetase) (air synthase); phosphoribosylglycinamide formyltransferase (ec 2.1.2.2) (gart) (gar transformylase) (5'-phosphoribosylglycinamide transformylase)]. [swissprot;acc:p22102]	5502.5	1.03979
5723.22	827	transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403]	5172.07	1.10656
5730.73	1918	seven in absentia homolog 1. [refseq;acc:nm_003031]	5394.24	1.06238
5733.93	1906	mitochondrial ribosomal protein l18. [refseq;acc:nm_014161]	5396.61	1.06251
5737.17	896	signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]	5208.27	1.10155
5737.79	1900	seven in absentia homolog 2. [refseq;acc:nm_005067]	5399.47	1.06266
5738.73	1705	translation initiation factor eif-2b epsilon subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q13144]	5369.43	1.06878
	1706	translation initiation factor eif-2b gamma subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9nr50]
5741.63	842	loh1cr12. [refseq;acc:nm_058169]	5195.48	1.10512
	843	unr protein. [swissprot;acc:o75534]
5743.5	1796	tubulin tyrosine ligase-like protein hottl (hqp0207). [swissprot;acc:q9y4r7]	5387.64	1.06605
5744.76	1788	arp2/3 complex 16 kda subunit (p16-arc) (actin-related protein 2/3 complex subunit 5). [swissprot;acc:o15511]	5386.49	1.06651
5744.78	1787	interferon-related developmental regulator 2 (skmc15 protein). [swissprot;acc:q12894]	5386.48	1.06652
5744.89	1774	dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]	5386.37	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]
5746.51	1750	arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144]	5384.89	1.06715
5749.33	856	heparin sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.-) (n- hsst) (n-heparin sulfate sulfotransferase) (glucosaminyl n- deacetylase/n-sulfotransferase). [swissprot;acc:p52849]	5210.58	1.1034
	857	n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784]
	858	n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569]
	859	heparan sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.8) (n-hsst) (hsnst) ([heparan sulfate]-glucosamine n-sulfotransferase) (n-heparan sulfate sulfotransferase) (glucosaminyl n-deacetylase/n- sulfotransferase). [swissprot;acc:p52848]
	860	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260]
5749.69	1991	solute carrier family 2, facilitated glucose transporter, member 6 (glucose transporter type 6) (glucose transporter type 9). [swissprot;acc:q9ugq3]	5429.27	1.05902
	1992	solute carrier family 2, facilitated glucose transporter, member 8 (glucose transporter type 8) (glucose transporter type x1). [swissprot;acc:q9ny64]
5750.34	826	exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	5195.58	1.10678

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.