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 1425 to 1474 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
713	DDX4	dead-box protein 4 (vasa homolog). [swissprot;acc:q9nqi0]	Low confidence	206.262	200.71	1.02766
	EIF3M	dendritic cell protein. [refseq;acc:nm_006360]	High confidence	223.121	211.685	1.05402
714	CPXM2	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]
	SEPT8	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Low confidence	152.572	148.47	1.02763
715	CPN1	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]	High confidence	223.121	211.685	1.05402
	GARS	glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250]	Low confidence	203.107	197.646	1.02763
716	CPZ	cpz gene product. [refseq;acc:nm_003652]	High confidence	223.121	211.685	1.05402
	EEF1D	elongation factor 1-delta (ef-1-delta) (antigen ny-co-4). [swissprot;acc:p29692]	Low confidence	203.552	198.081	1.02762
717	BTF3	transcription factor btf3 (rna polymerase b transcription factor 3). [swissprot;acc:p20290]		204.133	198.652	1.02759
	CPE	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	High confidence	223.121	211.685	1.05402
718	ARPC1B	arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]	Low confidence	201.612	196.213	1.02752
	CPXM1	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	High confidence	223.121	211.685	1.05402
719	NOL5A	nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567]		247.769	235.074	1.054
	STUB1	stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861]	Low confidence	199.172	193.841	1.0275
720	POLE	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]		204.279	198.814	1.02749
	RPLP2	60s acidic ribosomal protein p2. [swissprot;acc:p05387]	High confidence	231.92	244.435	1.05396
721	EXOC5	exocyst complex component sec10 (hsec10). [swissprot;acc:o00471]		214.765	203.8	1.0538
	SNX16	sorting nexin 16. [swissprot;acc:p57768]	Low confidence	203.411	197.971	1.02748
722	IGF2BP1	igf-ii mrna-binding protein 1. [refseq;acc:nm_006546]		205.571	200.075	1.02747
	TREH	trehalase precursor (ec 3.2.1.28) (alpha,alpha-trehalase) (alpha,alpha-trehalose glucohydrolase). [swissprot;acc:o43280]	High confidence	217.952	206.902	1.05341
723	no value	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]		244.842	232.577	1.05274
	PARN	poly(a)-specific ribonuclease (deadenylation nuclease); deadenylation nuclease. [refseq;acc:nm_002582]	Low confidence	203.779	198.331	1.02747
724	no value	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	High confidence	244.842	232.577	1.05274
	ACY1	aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]	Low confidence	201.765	196.371	1.02747
725	IGF2BP3	igf-ii mrna-binding protein 3; kh domain containing protein overexpressed in cancer. [refseq;acc:nm_006547]		205.563	200.075	1.02743
	MVK	mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426]	High confidence	235.296	247.673	1.0526
726	DDX39	dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804]	Low confidence	192.552	187.412	1.02743
	FTSJ3	ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647]	High confidence	244.495	232.419	1.05196
727	ARPC1A	actin-related protein 2/3 complex subunit 1a (sop2-like protein). [swissprot;acc:q92747]	Low confidence	201.571	196.189	1.02743
	NUAK1	probable serine/threonine-protein kinase kiaa0537 (ec 2.7.1.-). [swissprot;acc:o60285]	High confidence	208.873	219.71	1.05188
728	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	219.708	1.05187
	IGF2BP2	igf-ii mrna-binding protein 2. [refseq;acc:nm_006548]	Low confidence	205.561	200.075	1.02742
729	no value	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]	High confidence	208.874	219.708	1.05187
	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

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.