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

Results: HTML CSV LaTeX

Showing element 1575 to 1624 of 6456 in total

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

Rank	description	Network Comparison Type	red	network_comparison	green
788	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	Divided	138.705	1.04653	132.538
	loh1cr12. [refseq;acc:nm_058169]	Subtracted	230.087	9.508	220.579
789	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	Divided	224.244	1.04578	234.511
	unr protein. [swissprot;acc:o75534]	Subtracted	230.087	9.508	220.579
790	40s ribosomal protein s21. [swissprot;acc:p35265]	Divided	224.244	1.04578	234.511
	testis-specific protein tex28. [swissprot;acc:o15482]	Subtracted	212.386	9.399	221.785
791	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453]	Divided	224.244	1.04578	234.511
	similar to nuclear protein e3-3 orf1. [sptrembl;acc:q9bu61]	Subtracted	212.386	9.399	221.785
792	a kindred of iglon. [refseq;acc:nm_173808]
	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]	Divided	224.244	1.04578	234.511
793	ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1]	Subtracted	212.386	9.399	221.785
	bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]	Divided	224.244	1.04578	234.511
794	inflammation-related g protein-coupled receptor ex33. [refseq;acc:nm_020370]	Subtracted	212.386	9.399	221.785
	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]	Divided	224.244	1.04578	234.511
795	palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [swissprot;acc:p50897]	Subtracted	212.386	9.399	221.785
	serpin b11. [swissprot;acc:q96p15]	Divided	224.244	1.04578	234.511
796	beta-soluble nsf attachment protein (snap-beta) (n-ethylmaleimide- sensitive factor attachment protein, beta). [swissprot;acc:q9h115]	Subtracted	212.386	9.399	221.785
	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]	Divided	224.244	1.04578	234.511
797	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
	syntaxin 16 (syn16). [swissprot;acc:o14662]	Subtracted	212.386	9.399	221.785
798	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]
	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740]	Divided	224.244	1.04578	234.511
799	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]		221.965	1.04501	212.404
	syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623]	Subtracted	212.386	9.399	221.785
800	alpha-soluble nsf attachment protein (snap-alpha) (n-ethylmaleimide- sensitive factor attachment protein, alpha). [swissprot;acc:p54920]
	nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307]	Divided	221.965	1.04501	212.404
801	adipocyte plasma membrane-associated protein (bscv protein). [swissprot;acc:q9hdc9]	Subtracted	212.386	9.399	221.785
	beta-catenin (pro2286). [swissprot;acc:p35222]	Divided	224.445	1.04445	214.894
802	synaptosomal-associated protein 29 (snap-29) (vesicle-membrane fusion protein snap-29) (soluble 29 kda nsf attachment protein). [swissprot;acc:o95721]	Subtracted	212.386	9.399	221.785
	testis-specific protein tex28. [swissprot;acc:o15482]	Divided		1.04425
803	similar to nuclear protein e3-3 orf1. [sptrembl;acc:q9bu61]
	syntaxin 1b. [swissprot;acc:q15531]	Subtracted		9.399
804	a kindred of iglon. [refseq;acc:nm_173808]	Divided		1.04425
	melanoma antigen p15 (melanoma-associated antigen recognized by t lymphocytes). [swissprot;acc:q13084]	Subtracted		9.399
805	ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1]	Divided		1.04425
	dna-binding protein rfxank (regulatory factor x subunit b) (rfx-b) (ankyrin repeat family a protein 1). [swissprot;acc:o14593]	Subtracted		9.399
806	inflammation-related g protein-coupled receptor ex33. [refseq;acc:nm_020370]	Divided		1.04425
	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]	Subtracted	267.447	9.326	276.773
807	palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [swissprot;acc:p50897]	Divided	212.386	1.04425	221.785
	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]	Subtracted	218.521	9.275	227.796
808	60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993]		223.186	9.274	213.912
	beta-soluble nsf attachment protein (snap-beta) (n-ethylmaleimide- sensitive factor attachment protein, beta). [swissprot;acc:q9h115]	Divided	212.386	1.04425	221.785
809	diphosphomevalonate decarboxylase (ec 4.1.1.33) (mevalonate pyrophosphate decarboxylase) (mevalonate (diphospho)decarboxylase). [swissprot;acc:p53602]	Subtracted	233.298	9.273	242.571
	syntaxin 16 (syn16). [swissprot;acc:o14662]	Divided	212.386	1.04425	221.785
810	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]
	casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138]	Subtracted	240.194	9.237	230.957
811	casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784]
	syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623]	Divided	212.386	1.04425	221.785
812	alpha-soluble nsf attachment protein (snap-alpha) (n-ethylmaleimide- sensitive factor attachment protein, alpha). [swissprot;acc:p54920]
	putatative 28 kda protein. [refseq;acc:nm_020143]	Subtracted	227.241	9.226	236.467

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.