Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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 Gene Value Type description Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 777 to 826 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	green	red	network_comparison	
777	histone deacetylase 1 (hd1). [source:swissprot;acc:q13547]	215.53	225.989	1.04853	
778	sorting nexin 6 (traf4-associated factor 2). [source:swissprot;acc:q9unh7]	219.332	209.191	1.04848	
779	deoxycytidylate deaminase (ec 3.5.4.12) (dcmp deaminase). [source:swissprot;acc:p32321]	241.641	230.516	1.04826	
780	dna-directed rna polymerase ii 14.4 kda polypeptide (ec 2.7.7.6) (rpb6) (rpb14.4) (rpabc2). [source:swissprot;acc:p41584]	243.933	232.762	1.04799	
781	ribosomal protein p0-like protein; 60s acidic ribosomal protein po; ribosomal protein, large, p0-like. [source:refseq;acc:nm_016183]	257.636	245.84	1.04798	
782	translin. [source:swissprot;acc:q15631]	235.131	224.385	1.04789	
783	translin-associated protein x (translin-associated factor x). [source:swissprot;acc:q99598]	235.131	224.385	1.04789	
784	polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [source:refseq;acc:nm_005710]	235.131	224.385	1.04789	
785	neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [source:refseq;acc:nm_005863]	233.508	244.447	1.04685	
786	rho guanine nucleotide exchange factor 3; rhogef protein; 59.8 kda protein; exchange factor found in platelets and leukemic and neuronal tissues, xpln. [source:refseq;acc:nm_019555]	233.508	244.447	1.04685	
787	down-regulated in metastasis. [source:refseq;acc:nm_014503]	233.508	244.447	1.04685	
788	hira-interacting protein 5 (cgi-33). [source:swissprot;acc:q9ums0]	132.538	138.705	1.04653	
789	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [source:swissprot;acc:p08865]	234.511	224.244	1.04578	
790	40s ribosomal protein s21. [source:swissprot;acc:p35265]	234.511	224.244	1.04578	
791	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [source:swissprot;acc:p50453]	234.511	224.244	1.04578	
792	maspin precursor (protease inhibitor 5). [source:swissprot;acc:p36952]	234.511	224.244	1.04578	
793	bomapin (protease inhibitor 10) (serpin b10). [source:swissprot;acc:p48595]	234.511	224.244	1.04578	
794	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [source:swissprot;acc:p05120]	234.511	224.244	1.04578	
795	serpin b11. [source:swissprot;acc:q96p15]	234.511	224.244	1.04578	
796	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [source:swissprot;acc:p35237]	234.511	224.244	1.04578	
797	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [source:swissprot;acc:p50452]	234.511	224.244	1.04578	
798	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [source:swissprot;acc:p30740]	234.511	224.244	1.04578	
799	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [source:refseq;acc:nm_003900]	212.404	221.965	1.04501	
800	nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [source:swissprot;acc:p22307]	212.404	221.965	1.04501	
801	beta-catenin (pro2286). [source:swissprot;acc:p35222]	214.894	224.445	1.04445	
802	testis-specific protein tex28. [source:swissprot;acc:o15482]	221.785	212.386	1.04425	
803	similar to nuclear protein e3-3 orf1. [source:sptrembl;acc:q9bu61]	221.785	212.386	1.04425	
804	a kindred of iglon. [source:refseq;acc:nm_173808]	221.785	212.386	1.04425	
805	ankyrin-repeat family a protein 2 (rfxank-like 2). [source:swissprot;acc:q9h9e1]	221.785	212.386	1.04425	
806	inflammation-related g protein-coupled receptor ex33. [source:refseq;acc:nm_020370]	221.785	212.386	1.04425	
807	palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [source:swissprot;acc:p50897]	221.785	212.386	1.04425	
808	beta-soluble nsf attachment protein (snap-beta) (n-ethylmaleimide- sensitive factor attachment protein, beta). [source:swissprot;acc:q9h115]	221.785	212.386	1.04425	
809	syntaxin 16 (syn16). [source:swissprot;acc:o14662]	221.785	212.386	1.04425	
810	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [source:swissprot;acc:o14653]	221.785	212.386	1.04425	
811	syntaxin 1a (neuron-specific antigen hpc-1). [source:swissprot;acc:q16623]	221.785	212.386	1.04425	
812	alpha-soluble nsf attachment protein (snap-alpha) (n-ethylmaleimide- sensitive factor attachment protein, alpha). [source:swissprot;acc:p54920]	221.785	212.386	1.04425	
813	adipocyte plasma membrane-associated protein (bscv protein). [source:swissprot;acc:q9hdc9]	221.785	212.386	1.04425	
814	synaptosomal-associated protein 29 (snap-29) (vesicle-membrane fusion protein snap-29) (soluble 29 kda nsf attachment protein). [source:swissprot;acc:o95721]	221.785	212.386	1.04425	
815	syntaxin 1b. [source:swissprot;acc:q15531]	221.785	212.386	1.04425	
816	melanoma antigen p15 (melanoma-associated antigen recognized by t lymphocytes). [source:swissprot;acc:q13084]	221.785	212.386	1.04425	
817	dna-binding protein rfxank (regulatory factor x subunit b) (rfx-b) (ankyrin repeat family a protein 1). [source:swissprot;acc:o14593]	221.785	212.386	1.04425	
818	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [source:swissprot;acc:q9nzl6]	161.452	168.592	1.04422	
819	dna-directed rna polymerase ii 14.5 kda polypeptide (ec 2.7.7.6) (rpb9) (rpb14.5). [source:swissprot;acc:p36954]	238.668	228.563	1.04421	
820	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [source:swissprot;acc:q9y399]	231.501	221.716	1.04413	
821	u3 snornp protein 4 homolog. [source:refseq;acc:nm_033416]	231.453	221.676	1.0441	
822	eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [source:swissprot;acc:p55884]	232.805	243.067	1.04408	
823	transcription factor iib. [source:refseq;acc:nm_013242]	197.471	206.068	1.04354	
824	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [source:swissprot;acc:q12872]	197.471	206.068	1.04354	
825	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [source:swissprot;acc:o43516]	197.614	206.214	1.04352	
826	60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [source:swissprot;acc:q92993]	213.912	223.186	1.04335	

Legend:
- Rank is the rank after comparing the two networks
- 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.
- http://analysis.yellowcouch.org/