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

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Showing element 1675 to 1724 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	green	network_comparison
419	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	SRP9	Subtracted	High confidence	235.922	218.925	16.997
	[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]	BCKDK	Divided	Low confidence	202.714	195.825	1.03518
420	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	CD209		High confidence	233.539	253.197	1.08417
	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	CYC1	Subtracted		238.704	255.68	16.976
	nicotinamide nucleotide adenylyltransferase 3; pyridine nucleotide adenylyltransferase 3. [refseq;acc:nm_178177]	NMNAT3		Low confidence	206.507	199.515	6.992
	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	SNRPD2	Divided		201.134	194.302	1.03516
421	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]	AP2B1	Subtracted		207.064	200.076	6.988
	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	ARHGAP26		High confidence	238.704	255.68	16.976
	tetraspan net-5. [swissprot;acc:o75954]	TSPAN9	Divided	Low confidence	197.897	204.852	1.03514
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	TFIP11		High confidence	223.202	205.9	1.08403
422	ras-related protein rab-37. [swissprot;acc:q96ax2]	RAB37			240.287	260.193	1.08284
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	RGN	Subtracted		238.704	255.68	16.976
	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	LSM4		Low confidence	202.074	195.097	6.977
	zinc finger protein 258. [refseq;acc:nm_145310]	ZMYM6	Divided		205.501	198.528	1.03512
423	oligophrenin 1. [swissprot;acc:o60890]	OPHN1	Subtracted	High confidence	238.704	255.68	16.976
	ras-related protein rab-26. [swissprot;acc:q9ulw5]	RAB26	Divided		240.287	260.193	1.08284
	zinc finger protein 258. [refseq;acc:nm_145310]	ZMYM6	Subtracted	Low confidence	205.501	198.528	6.973
	zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202]	ZMYM3	Divided				1.03512
424	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]	POLR2C		High confidence	240.287	260.193	1.08284
	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	GTPBP4	Subtracted		251.83	234.951	16.879
	zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202]	ZMYM3		Low confidence	205.501	198.528	6.973
	zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095]	ZMYM4	Divided				1.03512
425	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]	ENDOG	Subtracted	High confidence	212.547	229.411	16.864
	max protein. [swissprot;acc:p25912]	MAX	Divided		227.828	210.561	1.082
	zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7]	ZMYM2		Low confidence	205.501	198.528	1.03512
	zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095]	ZMYM4	Subtracted				6.973
426	actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]	ACTR3	Divided				1.03512
	dynactin 4. [refseq;acc:nm_032486]	DCTN5		High confidence	233.142	252.253	1.08197
	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	AIFM1	Subtracted		212.547	229.411	16.864
	zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7]	ZMYM2		Low confidence	205.501	198.528	6.973
427	actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]	ACTR3
	cd82 antigen (inducible membrane protein r2) (c33 antigen) (ia4) (metastasis suppressor kangai 1) (suppressor of tumorigenicity-6). [swissprot;acc:p27701]	CD82	Divided		197.9	204.85	1.03512
	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	POLR2E		High confidence	239.977	259.525	1.08146
	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	TBX6	Subtracted		212.547	229.411	16.864
428	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	DDX54	Divided		253.852	234.808	1.0811
	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	ARRB2		Low confidence	194.137	187.552	1.03511
	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]	PPP2R5A	Subtracted		203.463	196.495	6.968
	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	LSM5		High confidence	227.748	210.888	16.86
429	dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658]	DPP6	Divided	Low confidence	202.75	195.879	1.03508
	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	POLR3G		High confidence	239.709	259.038	1.08064
	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]	EBNA1BP2	Subtracted		251.344	234.514	16.83
	tetraspan net-5. [swissprot;acc:o75954]	TSPAN9		Low confidence	197.897	204.852	6.955
430	cd82 antigen (inducible membrane protein r2) (c33 antigen) (ia4) (metastasis suppressor kangai 1) (suppressor of tumorigenicity-6). [swissprot;acc:p27701]	CD82			197.9	204.85	6.95
	dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868]	DPP10	Divided		202.75	195.88	1.03507
	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	PPAN-P2RY11	Subtracted	High confidence	250.938	234.134	16.804
	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	LSM5	Divided		227.748	210.888	1.07995
431	bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817]	BAG3	Subtracted		233.529	216.737	16.792
	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	no value		Low confidence	207.786	200.839	6.947
	seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884]	FAP	Divided		202.752	195.882	1.03507
	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	TRUB1		High confidence	236.245	255.113	1.07987

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.