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 825 to 874 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
413	KLF5	krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [swissprot;acc:q13887]	Low confidence	201.711	194.787	1.03555
	POLR1C	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	High confidence	240.913	261.45	1.08525
414	ACTR3B	similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2]	Low confidence	205.594	198.554	1.03546
	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	High confidence	232.431	252.238	1.08522
415	KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]		232.382	252.166	1.08514
	PPP2R5A	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	Low confidence	203.463	196.495	1.03546
416	AP1G1	adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747]		207.442	200.339	1.03545
	POLR1B	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	High confidence	240.6	261.041	1.08496
417	OXA1L	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	Low confidence	211.182	203.991	1.03525
	SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	High confidence	233.539	253.197	1.08417
418	CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]
	PPP2R5E	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	Low confidence	203.448	196.524	1.03523
419	BCKDK	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874]		202.714	195.825	1.03518
	FCER2	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	High confidence	233.539	253.197	1.08417
420	CD209	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]
	SNRPD2	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	Low confidence	201.134	194.302	1.03516
421	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	High confidence	223.202	205.9	1.08403
	TSPAN9	tetraspan net-5. [swissprot;acc:o75954]	Low confidence	197.897	204.852	1.03514
422	RAB37	ras-related protein rab-37. [swissprot;acc:q96ax2]	High confidence	240.287	260.193	1.08284
	ZMYM6	zinc finger protein 258. [refseq;acc:nm_145310]	Low confidence	205.501	198.528	1.03512
423	RAB26	ras-related protein rab-26. [swissprot;acc:q9ulw5]	High confidence	240.287	260.193	1.08284
	ZMYM3	zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202]	Low confidence	205.501	198.528	1.03512
424	POLR2C	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]	High confidence	240.287	260.193	1.08284
	ZMYM4	zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095]	Low confidence	205.501	198.528	1.03512
425	MAX	max protein. [swissprot;acc:p25912]	High confidence	227.828	210.561	1.082
	ZMYM2	zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7]	Low confidence	205.501	198.528	1.03512
426	ACTR3	actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]
	DCTN5	dynactin 4. [refseq;acc:nm_032486]	High confidence	233.142	252.253	1.08197
427	CD82	cd82 antigen (inducible membrane protein r2) (c33 antigen) (ia4) (metastasis suppressor kangai 1) (suppressor of tumorigenicity-6). [swissprot;acc:p27701]	Low confidence	197.9	204.85	1.03512
	POLR2E	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	High confidence	239.977	259.525	1.08146
428	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Low confidence	194.137	187.552	1.03511
	DDX54	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	High confidence	253.852	234.808	1.0811
429	DPP6	dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658]	Low confidence	202.75	195.879	1.03508
	POLR3G	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	High confidence	239.709	259.038	1.08064
430	DPP10	dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868]	Low confidence	202.75	195.88	1.03507
	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	High confidence	227.748	210.888	1.07995
431	FAP	seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884]	Low confidence	202.752	195.882	1.03507
	TRUB1	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	High confidence	236.245	255.113	1.07987
432	ENDOG	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]		212.547	229.411	1.07934
	NMNAT3	nicotinamide nucleotide adenylyltransferase 3; pyridine nucleotide adenylyltransferase 3. [refseq;acc:nm_178177]	Low confidence	206.507	199.515	1.03504
433	AIFM1	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	High confidence	212.547	229.411	1.07934
	CACNG5	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Low confidence	210.292	203.181	1.035
434	EGFL7	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]		214.527	222.034	1.03499
	TBX6	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	High confidence	212.547	229.411	1.07934
435	PDK2	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119]	Low confidence	202.782	195.927	1.03499
	POLI	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	High confidence	221.522	205.286	1.07909
436	PDK1	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118]	Low confidence	202.782	195.928	1.03498
	PXN	paxillin. [swissprot;acc:p49023]	High confidence	221.522	205.286	1.07909
437	AP2B1	adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851]	Low confidence	207.064	200.076	1.03493
	TRIP10	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	High confidence	209.921	226.459	1.07878

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.