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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 833 to 882 of 6456 in total

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

Rank	description	Network Comparison Type	green	red	network_comparison
417	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	Divided	253.197	233.539	1.08417
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	218.837	235.94	17.103
418	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	Divided	253.197	233.539	1.08417
	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	Subtracted	216.674	233.723	17.049
419	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	Divided	253.197	233.539	1.08417
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	218.925	235.922	16.997
420	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	Divided	253.197	233.539	1.08417
	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	Subtracted	255.68	238.704	16.976
421	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Divided	205.9	223.202	1.08403
422	ras-related protein rab-37. [swissprot;acc:q96ax2]		260.193	240.287	1.08284
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	Subtracted	255.68	238.704	16.976
423	oligophrenin 1. [swissprot;acc:o60890]
	ras-related protein rab-26. [swissprot;acc:q9ulw5]	Divided	260.193	240.287	1.08284
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]
	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Subtracted	234.951	251.83	16.879
425	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]		229.411	212.547	16.864
	max protein. [swissprot;acc:p25912]	Divided	210.561	227.828	1.082
426	dynactin 4. [refseq;acc:nm_032486]		252.253	233.142	1.08197
	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	Subtracted	229.411	212.547	16.864
427	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	Divided	259.525	239.977	1.08146
	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	Subtracted	229.411	212.547	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]	Divided	234.808	253.852	1.0811
	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Subtracted	210.888	227.748	16.86
429	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	Divided	259.038	239.709	1.08064
	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]	Subtracted	234.514	251.344	16.83
430	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]		234.134	250.938	16.804
	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Divided	210.888	227.748	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]	Subtracted	216.737	233.529	16.792
	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	Divided	255.113	236.245	1.07987
432	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]		229.411	212.547	1.07934
	mct-1 protein. [refseq;acc:nm_014060]	Subtracted	243.03	226.313	16.717
433	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]
	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	Divided	229.411	212.547	1.07934
434	ad24 protein. [refseq;acc:nm_022451]	Subtracted	234.672	251.334	16.662
	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	Divided	229.411	212.547	1.07934
435	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]		205.286	221.522	1.07909
	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	Subtracted	234.729	251.299	16.57
436	paxillin. [swissprot;acc:p49023]	Divided	205.286	221.522	1.07909
	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	Subtracted	248.048	231.496	16.552
437	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	Divided	226.459	209.921	1.07878
		Subtracted			16.538
438	block of proliferation 1. [swissprot;acc:q14137]		234.433	250.794	16.361
	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	Divided	216.674	233.723	1.07869
439	40s ribosomal protein s9. [swissprot;acc:p46781]		257.784	238.986	1.07866
	pescadillo homolog 1. [swissprot;acc:o00541]	Subtracted	234.941	251.297	16.356
440	40s ribosomal protein s26. [swissprot;acc:p02383]		226.578	210.224	16.354
	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	Divided	249.983	231.802	1.07843
441	grb2-related adaptor protein. [swissprot;acc:q13588]		207.222	223.457	1.07835
	mitochondrial import inner membrane translocase subunit tim22. [swissprot;acc:q9y584]	Subtracted	226.578	210.225	16.353

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
- 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.