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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 3358 to 3407 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	Network Comparison Type	red	green	network_comparison
420	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	Squared	Subtracted	32192.8	37967.1	5774.3
	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]	Measured	Divided	10235.2	11830.8	1.15589
	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]		Subtracted	5942.49	6853.15	910.66
421	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	Rooted	Divided	50.4666	45.9317	1.09873
	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]	Squared		36933	44953.6	1.21717
	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Measured	Subtracted	6739.43	7644.55	905.12
	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Squared		32189.9	37963.6	5773.7
	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	Ranked		238.704	255.68	16.976
	thrombospondin 3 precursor. [swissprot;acc:p49746]	Rooted		51.6132	45.8422	5.771
	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Ranked	Divided	223.202	205.9	1.08403
	vav-2 protein. [swissprot;acc:p52735]	Measured		6660.02	7697.78	1.15582
422	60s ribosomal protein l5. [swissprot;acc:p46777]	Rooted		50.4641	45.9293	1.09873
	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Measured	Subtracted	460	1365	905
	dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1]	Squared	Divided	25860	31475.4	1.21715
	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]		Subtracted	32188.2	37961.6	5773.4
	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]	Measured	Divided	5206.9	6010.04	1.15425
	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	Rooted	Subtracted	80.4069	86.1018	5.6949
	ras-related protein rab-37. [swissprot;acc:q96ax2]	Ranked	Divided	240.287	260.193	1.08284
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]		Subtracted	238.704	255.68	16.976
423	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	Rooted	Divided	50.4663	45.9313	1.09873
	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	Measured	Subtracted	6739.61	7644.58	904.97
		Squared		32187.7	37961	5773.3
	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	Rooted		60.0148	65.6429	5.6281
	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [swissprot;acc:q9h4d5]	Measured	Divided	5207.03	6010.1	1.15423
	oligophrenin 1. [swissprot;acc:o60890]	Ranked	Subtracted	238.704	255.68	16.976
	ras-related protein rab-26. [swissprot;acc:q9ulw5]		Divided	240.287	260.193	1.08284
	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	Squared		36735.7	44689.6	1.21652
424	60s ribosomal protein l23a. [swissprot;acc:p29316]	Rooted		50.4703	45.9373	1.09868
	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]	Ranked		240.287	260.193	1.08284
	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Squared	Subtracted	32183.5	37955.7	5772.2
	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Measured		6739.63	7644.59	904.96
	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Rooted		51.9812	57.5858	5.6046
	mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [swissprot;acc:q10713]	Squared	Divided	20259.5	24635.7	1.21601
	nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [swissprot;acc:q9ubu9]	Measured		5207.78	6010.45	1.15413
	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Ranked	Subtracted	251.83	234.951	16.879
425	40s ribosomal protein s20. [swissprot;acc:p17075]	Rooted	Divided	50.0161	45.5318	1.09849
	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]	Ranked	Subtracted	212.547	229.411	16.864
	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Measured		6739.7	7644.6	904.9
	max protein. [swissprot;acc:p25912]	Ranked	Divided	227.828	210.561	1.082
	mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [swissprot;acc:o75439]	Squared		20258.6	24634.7	1.21601
	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]	Rooted	Subtracted	48.1584	53.7378	5.5794
	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	Measured	Divided	3729.02	4301.58	1.15354
	serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549]	Squared	Subtracted	28408.7	34148.5	5739.8
426	dendritic cell protein. [refseq;acc:nm_006360]			33104	38818.5	5714.5
	dynactin 4. [refseq;acc:nm_032486]	Ranked	Divided	233.142	252.253	1.08197
	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Measured	Subtracted	6739.81	7644.62	904.81
	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Rooted		66.0815	71.6562	5.5747
	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]		Divided	55.1073	60.5285	1.09838
	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	Measured		5942.49	6853.15	1.15325
	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	Ranked	Subtracted	212.547	229.411	16.864

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.