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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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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 1425 to 1474 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
713	dendritic cell protein. [refseq;acc:nm_006360]	Divided	223.121	211.685	1.05402
	lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428]	Subtracted	224.434	235.583	11.149
714	microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005]
	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	Divided	223.121	211.685	1.05402
715	carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169]
	uridine 5'-monophosphate synthase (ump synthase) [includes: orotate phosphoribosyltransferase (ec 2.4.2.10) (oprtase); orotidine 5'- phosphate decarboxylase (ec 4.1.1.23) (ompdecase)]. [swissprot;acc:p11172]	Subtracted	224.434	235.583	11.149
716	cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294]
	cpz gene product. [refseq;acc:nm_003652]	Divided	223.121	211.685	1.05402
717	bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213]	Subtracted	224.434	235.583	11.149
	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	Divided	223.121	211.685	1.05402
718	phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058]	Subtracted	224.434	235.583	11.149
	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	Divided	223.121	211.685	1.05402
719	deoxycytidylate deaminase (ec 3.5.4.12) (dcmp deaminase). [swissprot;acc:p32321]	Subtracted	230.516	241.641	11.125
	nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567]	Divided	247.769	235.074	1.054
720	60s acidic ribosomal protein p2. [swissprot;acc:p05387]		231.92	244.435	1.05396
	trehalase precursor (ec 3.2.1.28) (alpha,alpha-trehalase) (alpha,alpha-trehalose glucohydrolase). [swissprot;acc:o43280]	Subtracted	217.952	206.902	11.05
721	exocyst complex component sec10 (hsec10). [swissprot;acc:o00471]	Divided	214.765	203.8	1.0538
		Subtracted			10.965
722	neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863]		244.447	233.508	10.939
	trehalase precursor (ec 3.2.1.28) (alpha,alpha-trehalase) (alpha,alpha-trehalose glucohydrolase). [swissprot;acc:o43280]	Divided	217.952	206.902	1.05341
723	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]		244.842	232.577	1.05274
	rho guanine nucleotide exchange factor 3; rhogef protein; 59.8 kda protein; exchange factor found in platelets and leukemic and neuronal tissues, xpln. [refseq;acc:nm_019555]	Subtracted	244.447	233.508	10.939
724	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	Divided	244.842	232.577	1.05274
	down-regulated in metastasis. [refseq;acc:nm_014503]	Subtracted	244.447	233.508	10.939
725	mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426]	Divided	235.296	247.673	1.0526
	solute carrier family 35, member b1; udp-galactose transporter related. [refseq;acc:nm_005827]	Subtracted	214.679	225.568	10.889
726	ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647]	Divided	244.495	232.419	1.05196
	xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7]	Subtracted	222.825	211.966	10.859
727	probable serine/threonine-protein kinase kiaa0537 (ec 2.7.1.-). [swissprot;acc:o60285]	Divided	208.873	219.71	1.05188
		Subtracted			10.837
728	n-acetyllactosaminide beta-1,3-n-acetylglucosaminyltransferase (ec 2.4.1.149) (poly-n-acetyllactosamine extension enzyme) (i-beta- 1,3-n-acetylglucosaminyltransferase) (ignt) (udp-glcnac:betagal beta- 1,3-n-acetylglucosaminyltransferase 6). [swissprot;acc:o43505]	Divided	208.874	219.708	1.05187
		Subtracted			10.834
729	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]	Divided			1.05187
		Subtracted			10.834
730	mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8]	Divided			1.05187
		Subtracted			10.834
731	fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954]	Divided			1.05187
		Subtracted			10.834
732	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Divided	124.434	118.318	1.05169
	translin. [swissprot;acc:q15631]	Subtracted	224.385	235.131	10.746
733	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	Divided	164	155.961	1.05154
	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]	Subtracted	224.385	235.131	10.746
734	polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]
	presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8]	Divided	232.601	244.534	1.0513
735	gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080]
	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]	Subtracted	229.045	218.343	10.702
736	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]	Divided	232.601	244.534	1.0513
	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	Subtracted	228.78	218.091	10.689
737	exocyst complex component sec15b. [swissprot;acc:q9y2d4]		221.968	211.326	10.642
	septin 10 isoform 1. [refseq;acc:nm_144710]	Divided	125.526	119.402	1.05129

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.