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

Results: HTML CSV LaTeX

Showing element 2908 to 2957 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Interaction Map	red	network_comparison	green
727	Subtracted	NUAK1	probable serine/threonine-protein kinase kiaa0537 (ec 2.7.1.-). [swissprot;acc:o60285]	High confidence	208.873	10.837	219.71
728	Divided	B3GNT1	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]		208.874	1.05187	219.708
		IGF2BP2	igf-ii mrna-binding protein 2. [refseq;acc:nm_006548]	Low confidence	205.561	1.02742	200.075
	Subtracted	ALDH3B2	aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]		209.59	5.433	215.023
		B3GNT1	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]	High confidence	208.874	10.834	219.708
729	Divided	no value	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]			1.05187
		MRPS16	28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	Low confidence	205.65	1.0274	200.165
	Subtracted	no value	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]	High confidence	208.874	10.834	219.708
		MKI67IP	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]	Low confidence	204.098	5.428	198.67
730	Divided	MRPS26	28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8]		206.555	1.02738	201.05
		TIMM10	mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8]	High confidence	208.874	1.05187	219.708
	Subtracted	no value	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	Low confidence	201.325	5.428	195.897
		TIMM10	mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8]	High confidence	208.874	10.834	219.708
731	Divided	FH	fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954]			1.05187
		PARS2	similar to trna synthetase class ii. [refseq;acc:nm_152268]	Low confidence	203.316	1.02735	197.904
	Subtracted	FBXL10	protein containing cxxc domain 2. [refseq;acc:nm_032590]		202.951	5.427	208.378
		FH	fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954]	High confidence	208.874	10.834	219.708
732	Divided	PPP1R3C	protein phosphatase 1, regulatory (inhibitor) subunit 5; phosphatase 1, regulatory inhibitor subunit 5. [refseq;acc:nm_005398]	Low confidence	203.592	1.02735	198.172
		SEPT8	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	High confidence	124.434	1.05169	118.318
	Subtracted	no value	translin. [swissprot;acc:q15631]		224.385	10.746	235.131
		G3BP2	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]	Low confidence	210.933	5.425	216.358
733	Divided	ACADVL	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	High confidence	164	1.05154	155.961
		MKI67IP	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]	Low confidence	204.098	1.02732	198.67
	Subtracted	LIG1	dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]		204.123	5.424	198.699
		TSNAX	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]	High confidence	224.385	10.746	235.131
734	Divided	no value	presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8]		232.601	1.0513	244.534
		SEPT10	septin 10 isoform 1. [refseq;acc:nm_144710]	Low confidence	153.764	1.0273	149.678
	Subtracted	PQBP1	polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]	High confidence	224.385	10.746	235.131
		SAR1B	gtp-binding protein sar1b. [swissprot;acc:q9y6b6]	Low confidence	201.401	5.422	195.979
735	Divided	LIG1	dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]		204.123	1.0273	198.699
		RANP1	gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080]	High confidence	232.601	1.0513	244.534
	Subtracted	HEMK1	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]		229.045	10.702	218.343
		PPP1R3C	protein phosphatase 1, regulatory (inhibitor) subunit 5; phosphatase 1, regulatory inhibitor subunit 5. [refseq;acc:nm_005398]	Low confidence	203.592	5.42	198.172
736	Divided	no value	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]	High confidence	232.601	1.0513	244.534
		PDCD11	rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690]	Low confidence	202.639	1.02726	197.261
	Subtracted	MAD1L1	mad1-like 1; mad1 (mitotic arrest deficient, yeast, homolog)-like 1; mitotic-arrest deficient 1, yeast, homolog-like 1; tumor protein p53 inducible protein 9. [refseq;acc:nm_003550]		208.017	5.416	202.601
		N6AMT1	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	High confidence	228.78	10.689	218.091
737	Divided	OTC	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	Low confidence	179.918	1.02719	175.156
		SEPT10	septin 10 isoform 1. [refseq;acc:nm_144710]	High confidence	125.526	1.05129	119.402
	Subtracted	AGPAT3	1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7]	Low confidence	192.166	5.415	186.751
		EXOC6B	exocyst complex component sec15b. [swissprot;acc:q9y2d4]	High confidence	221.968	10.642	211.326
738	Divided	EPS8L1	epidermal growth factor receptor pathway substrate 8-like protein 1 isoform c; epidermal growth factor receptor pathway substrate 8-related protein 1; eps8-related protein 1. [refseq;acc:nm_139204]	Low confidence	206.474	1.02717	201.013
		XAB2	xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7]	High confidence	222.825	1.05123	211.966
	Subtracted	EXOC6	exocyst complex component sec15a. [swissprot;acc:q8tag9]		222.138	10.635	211.503
		PARS2	similar to trna synthetase class ii. [refseq;acc:nm_152268]	Low confidence	203.316	5.412	197.904
739	Divided	LYPLA3	lysophospholipase 3 (lysosomal phospholipase a2); lcat-like lysophospholipase; likely ortholog of bovine lysosomal phospholipase a2; 1-o-acylceramide synthase; lysosomal phospholipase a2; lysophospholipase 3. [refseq;acc:nm_012320]		204.348	1.02716	198.945
		PFAS	phosphoribosylformylglycinamidine synthase (ec 6.3.5.3) (fgam synthase) (fgams) (formylglycinamide ribotide amidotransferase) (fgarat) (formylglycinamide ribotide synthetase). [swissprot;acc:o15067]	High confidence	223.58	1.0512	235.027
	Subtracted	PDPK1	3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530]		272.878	10.594	283.472
		STX1B	syntaxin 1b. [swissprot;acc:q15531]	Low confidence	211.432	5.411	206.021
740	Divided	ATIC	bifunctional purine biosynthesis protein purh [includes: phosphoribosylaminoimidazolecarboxamide formyltransferase (ec 2.1.2.3) (aicar transformylase); imp cyclohydrolase (ec 3.5.4.10) (inosinicase) (imp synthetase) (atic)]. [swissprot;acc:p31939]	High confidence	223.58	1.0512	235.027

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
- 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.