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

Results: HTML CSV LaTeX

Showing element 1458 to 1507 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
729	MRPS16	28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	Low confidence	205.65	200.165	1.0274
730	MRPS26	28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8]		206.555	201.05	1.02738
	TIMM10	mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8]	High confidence	208.874	219.708	1.05187
731	FH	fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954]
	PARS2	similar to trna synthetase class ii. [refseq;acc:nm_152268]	Low confidence	203.316	197.904	1.02735
732	PPP1R3C	protein phosphatase 1, regulatory (inhibitor) subunit 5; phosphatase 1, regulatory inhibitor subunit 5. [refseq;acc:nm_005398]		203.592	198.172
	SEPT8	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	High confidence	124.434	118.318	1.05169
733	ACADVL	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]		164	155.961	1.05154
	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	198.67	1.02732
734	no value	presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8]	High confidence	232.601	244.534	1.0513
	SEPT10	septin 10 isoform 1. [refseq;acc:nm_144710]	Low confidence	153.764	149.678	1.0273
735	LIG1	dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]		204.123	198.699
	RANP1	gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080]	High confidence	232.601	244.534	1.0513
736	no value	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]
	PDCD11	rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690]	Low confidence	202.639	197.261	1.02726
737	OTC	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]		179.918	175.156	1.02719
	SEPT10	septin 10 isoform 1. [refseq;acc:nm_144710]	High confidence	125.526	119.402	1.05129
738	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	201.013	1.02717
	XAB2	xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7]	High confidence	222.825	211.966	1.05123
739	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]	Low confidence	204.348	198.945	1.02716
	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	235.027	1.0512
740	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]
	EPS8	epidermal growth factor receptor kinase substrate eps8. [swissprot;acc:q12929]	Low confidence	206.469	201.011	1.02715
741	DDX56	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]		204.111	198.722	1.02712
	PAICS	multifunctional protein ade2 [includes: phosphoribosylaminoimidazole- succinocarboxamide synthase (ec 6.3.2.6) (saicar synthetase); phosphoribosylaminoimidazole carboxylase (ec 4.1.1.21) (air carboxylase) (airc)]. [swissprot;acc:p22234]	High confidence	223.58	235.027	1.0512
742	BRP44	brain protein 44. [swissprot;acc:o95563]		126.215	120.078	1.05111
	SEPT6	septin 6. [swissprot;acc:q14141]	Low confidence	154.495	150.416	1.02712
743	RNASEH1	ribonuclease h1 (ec 3.1.26.4) (rnase h1) (ribonuclease h type ii). [swissprot;acc:o60930]		206.457	201.008	1.02711
	SEPT7	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	High confidence	126.215	120.078	1.05111
744	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Low confidence	203.233	197.87	1.0271
	SEPT6	septin 6. [swissprot;acc:q14141]	High confidence	126.604	120.463	1.05098
745	no value	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	Low confidence	203.545	198.176	1.02709
	SLC35B1	solute carrier family 35, member b1; udp-galactose transporter related. [refseq;acc:nm_005827]	High confidence	214.679	225.568	1.05072
746	no value	phosphatidylcholine-sterol acyltransferase precursor (ec 2.3.1.43) (lecithin-cholesterol acyltransferase) (phospholipid-cholesterol acyltransferase). [swissprot;acc:p04180]	Low confidence	204.311	198.923	1.02709
	EIF3I	eukaryotic translation initiation factor 3 subunit 2 (eif-3 beta) (eif3 p36) (eif3i) (tgf-beta receptor interacting protein 1) (trip-1). [swissprot;acc:q13347]	High confidence	250.465	238.38	1.0507
747	no value	trinucleotide repeat containing 15. [refseq;acc:nm_015575]
	PDK4	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 4, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 4). [swissprot;acc:q16654]	Low confidence	203.545	198.176	1.02709
748	FBL	fibrillarin (34 kda nucleolar scleroderma antigen). [swissprot;acc:p22087]	High confidence	245.246	233.483	1.05038
	PDK3	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 3, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 3). [swissprot;acc:q15120]	Low confidence	203.543	198.176	1.02708
749	EXOC6B	exocyst complex component sec15b. [swissprot;acc:q9y2d4]	High confidence	221.968	211.326	1.05036
	TIMM13	mitochondrial import inner membrane translocase subunit tim13 b. [swissprot;acc:q9y5l4]	Low confidence	203.24	197.883	1.02707
750	ERBB4	receptor protein-tyrosine kinase erbb-4 precursor (ec 2.7.1.112) (p180erbb4) (tyrosine kinase-type cell surface receptor her4). [swissprot;acc:q15303]		211.36	205.793	1.02705
	EXOC6	exocyst complex component sec15a. [swissprot;acc:q8tag9]	High confidence	222.138	211.503	1.05028
751	no value	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]		223.463	212.875	1.04974
	CLPX	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]	Low confidence	202.039	196.717	1.02705
752	ERBB3	receptor protein-tyrosine kinase erbb-3 precursor (ec 2.7.1.112) (c-erbb3) (tyrosine kinase-type cell surface receptor her3). [swissprot;acc:p21860]		211.36	205.793
	SLU7	step ii splicing factor slu7. [refseq;acc:nm_006425]	High confidence	223.463	212.875	1.04974
753	LBP	lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428]		224.434	235.583	1.04968
	POLDIP2	dna polymerase delta p38 subunit. [refseq;acc:nm_015584]	Low confidence	202.039	196.717	1.02705
754	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]		203.246	197.894	1.02704

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.