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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 832 to 881 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
416	TAF7L	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	Subtracted	200.791	183.66	17.131
417	SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	Divided	233.539	253.197	1.08417
	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	235.94	218.837	17.103
418	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]		233.723	216.674	17.049
	CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	Divided	233.539	253.197	1.08417
419	FCER2	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]
	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	235.922	218.925	16.997
420	CD209	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	Divided	233.539	253.197	1.08417
	CYC1	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	Subtracted	238.704	255.68	16.976
421	ARHGAP26	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]
	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Divided	223.202	205.9	1.08403
422	RAB37	ras-related protein rab-37. [swissprot;acc:q96ax2]		240.287	260.193	1.08284
	RGN	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	Subtracted	238.704	255.68	16.976
423	OPHN1	oligophrenin 1. [swissprot;acc:o60890]
	RAB26	ras-related protein rab-26. [swissprot;acc:q9ulw5]	Divided	240.287	260.193	1.08284
424	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Subtracted	251.83	234.951	16.879
	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]	Divided	240.287	260.193	1.08284
425	ENDOG	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]	Subtracted	212.547	229.411	16.864
	MAX	max protein. [swissprot;acc:p25912]	Divided	227.828	210.561	1.082
426	AIFM1	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	Subtracted	212.547	229.411	16.864
	DCTN5	dynactin 4. [refseq;acc:nm_032486]	Divided	233.142	252.253	1.08197
427	POLR2E	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]		239.977	259.525	1.08146
	TBX6	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	Subtracted	212.547	229.411	16.864
428	DDX54	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	Divided	253.852	234.808	1.0811
	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Subtracted	227.748	210.888	16.86
429	EBNA1BP2	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]		251.344	234.514	16.83
	POLR3G	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	Divided	239.709	259.038	1.08064
430	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]		227.748	210.888	1.07995
	PPAN-P2RY11	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	Subtracted	250.938	234.134	16.804
431	BAG3	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]		233.529	216.737	16.792
	TRUB1	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	Divided	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
	MCTS1	mct-1 protein. [refseq;acc:nm_014060]	Subtracted	226.313	243.03	16.717
433	AIFM1	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	Divided	212.547	229.411	1.07934
	MRPL22	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	Subtracted	226.313	243.03	16.717
434	NOC3L	ad24 protein. [refseq;acc:nm_022451]		251.334	234.672	16.662
	TBX6	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	Divided	212.547	229.411	1.07934
435	POLI	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]		221.522	205.286	1.07909
	WDR12	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	Subtracted	251.299	234.729	16.57
436	PXN	paxillin. [swissprot;acc:p49023]	Divided	221.522	205.286	1.07909
	TPI1	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	Subtracted	231.496	248.048	16.552
437	TRIP10	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	Divided	209.921	226.459	1.07878
			Subtracted			16.538
438	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	Divided	233.723	216.674	1.07869
	BOP1	block of proliferation 1. [swissprot;acc:q14137]	Subtracted	250.794	234.433	16.361
439	PES1	pescadillo homolog 1. [swissprot;acc:o00541]		251.297	234.941	16.356
	RPS9	40s ribosomal protein s9. [swissprot;acc:p46781]	Divided	238.986	257.784	1.07866
440	no value	40s ribosomal protein s26. [swissprot;acc:p02383]	Subtracted	210.224	226.578	16.354
	NDC80	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	Divided	231.802	249.983	1.07843
441	GRAP	grb2-related adaptor protein. [swissprot;acc:q13588]		223.457	207.222	1.07835

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.