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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 780 to 829 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	Hugo	description	red	green	network_comparison	
780	POLR2F	dna-directed rna polymerase ii 14.4 kda polypeptide (ec 2.7.7.6) (rpb6) (rpb14.4) (rpabc2). [source:swissprot;acc:p41584]	232.762	243.933	1.04799	
781	MRTO4	ribosomal protein p0-like protein; 60s acidic ribosomal protein po; ribosomal protein, large, p0-like. [source:refseq;acc:nm_016183]	245.84	257.636	1.04798	
782		translin. [source:swissprot;acc:q15631]	224.385	235.131	1.04789	
783	TSNAX	translin-associated protein x (translin-associated factor x). [source:swissprot;acc:q99598]	224.385	235.131	1.04789	
784	PQBP1	polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [source:refseq;acc:nm_005710]	224.385	235.131	1.04789	
785	NET1	neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [source:refseq;acc:nm_005863]	244.447	233.508	1.04685	
786	ARHGEF3	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]	244.447	233.508	1.04685	
787	UTP20	down-regulated in metastasis. [source:refseq;acc:nm_014503]	244.447	233.508	1.04685	
788	NFU1	hira-interacting protein 5 (cgi-33). [source:swissprot;acc:q9ums0]	138.705	132.538	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]	224.244	234.511	1.04578	
790	RPS21	40s ribosomal protein s21. [source:swissprot;acc:p35265]	224.244	234.511	1.04578	
791	SERPINB9	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [source:swissprot;acc:p50453]	224.244	234.511	1.04578	
792		maspin precursor (protease inhibitor 5). [source:swissprot;acc:p36952]	224.244	234.511	1.04578	
793	SERPINB10	bomapin (protease inhibitor 10) (serpin b10). [source:swissprot;acc:p48595]	224.244	234.511	1.04578	
794	SERPINB8	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [source:swissprot;acc:p05120]	224.244	234.511	1.04578	
795		serpin b11. [source:swissprot;acc:q96p15]	224.244	234.511	1.04578	
796	SERPINB6	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [source:swissprot;acc:p35237]	224.244	234.511	1.04578	
797		cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [source:swissprot;acc:p50452]	224.244	234.511	1.04578	
798	SERPINB1	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [source:swissprot;acc:p30740]	224.244	234.511	1.04578	
799	SQSTM1	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [source:refseq;acc:nm_003900]	221.965	212.404	1.04501	
800	SCP2	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]	221.965	212.404	1.04501	
801	CTNNB1	beta-catenin (pro2286). [source:swissprot;acc:p35222]	224.445	214.894	1.04445	
802	TEX28P2	testis-specific protein tex28. [source:swissprot;acc:o15482]	212.386	221.785	1.04425	
803	C3orf60	similar to nuclear protein e3-3 orf1. [source:sptrembl;acc:q9bu61]	212.386	221.785	1.04425	
804	NEGR1	a kindred of iglon. [source:refseq;acc:nm_173808]	212.386	221.785	1.04425	
805	ANKRA2	ankyrin-repeat family a protein 2 (rfxank-like 2). [source:swissprot;acc:q9h9e1]	212.386	221.785	1.04425	
806	GPR84	inflammation-related g protein-coupled receptor ex33. [source:refseq;acc:nm_020370]	212.386	221.785	1.04425	
807	PPT1	palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [source:swissprot;acc:p50897]	212.386	221.785	1.04425	
808	NAPB	beta-soluble nsf attachment protein (snap-beta) (n-ethylmaleimide- sensitive factor attachment protein, beta). [source:swissprot;acc:q9h115]	212.386	221.785	1.04425	
809	STX16	syntaxin 16 (syn16). [source:swissprot;acc:o14662]	212.386	221.785	1.04425	
810	GOSR2	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [source:swissprot;acc:o14653]	212.386	221.785	1.04425	
811	STX1A	syntaxin 1a (neuron-specific antigen hpc-1). [source:swissprot;acc:q16623]	212.386	221.785	1.04425	
812	NAPA	alpha-soluble nsf attachment protein (snap-alpha) (n-ethylmaleimide- sensitive factor attachment protein, alpha). [source:swissprot;acc:p54920]	212.386	221.785	1.04425	
813	C20orf3	adipocyte plasma membrane-associated protein (bscv protein). [source:swissprot;acc:q9hdc9]	212.386	221.785	1.04425	
814	SNAP29	synaptosomal-associated protein 29 (snap-29) (vesicle-membrane fusion protein snap-29) (soluble 29 kda nsf attachment protein). [source:swissprot;acc:o95721]	212.386	221.785	1.04425	
815	STX1B	syntaxin 1b. [source:swissprot;acc:q15531]	212.386	221.785	1.04425	
816	MRPL28	melanoma antigen p15 (melanoma-associated antigen recognized by t lymphocytes). [source:swissprot;acc:q13084]	212.386	221.785	1.04425	
817	RFXANK	dna-binding protein rfxank (regulatory factor x subunit b) (rfx-b) (ankyrin repeat family a protein 1). [source:swissprot;acc:o14593]	212.386	221.785	1.04425	
818	RGL1	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [source:swissprot;acc:q9nzl6]	168.592	161.452	1.04422	
819	POLR2I	dna-directed rna polymerase ii 14.5 kda polypeptide (ec 2.7.7.6) (rpb9) (rpb14.5). [source:swissprot;acc:p36954]	228.563	238.668	1.04421	
820	MRPS2	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [source:swissprot;acc:q9y399]	221.716	231.501	1.04413	
821	IMP4	u3 snornp protein 4 homolog. [source:refseq;acc:nm_033416]	221.676	231.453	1.0441	
822	EIF3B	eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [source:swissprot;acc:p55884]	243.067	232.805	1.04408	
823	C16orf80	transcription factor iib. [source:refseq;acc:nm_013242]	206.068	197.471	1.04354	
824	SFRS8	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [source:swissprot;acc:q12872]	206.068	197.471	1.04354	
825	WIPF1	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [source:swissprot;acc:o43516]	206.214	197.614	1.04352	
826	HTATIP	60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [source:swissprot;acc:q92993]	223.186	213.912	1.04335	
827	LOH12CR1	loh1cr12. [source:refseq;acc:nm_058169]	230.087	220.579	1.0431	
828	CSDE1	unr protein. [source:swissprot;acc:o75534]	230.087	220.579	1.0431	
829	SEPT4	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [source:swissprot;acc:o43236]	135.844	130.259	1.04288	

Legend:
- Rank is the rank after comparing the two networks
- Hugo is the HGNC identifier if it exists
- 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/