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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Rank	description	Value Type	green	Network Comparison Type	Filtered	Interaction Map	network_comparison	red
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Ranked	15915	Divided	0	High confidence	3.70633	4294
	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Measured	6410	Subtracted			6325	85
						Low confidence
		Rooted	60.0707			High confidence	50.8706	9.20014
						Low confidence
	cab2. [refseq;acc:nm_033419]	Squared	7.16592	Divided		High confidence	716592	0.00001
	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Measured	32028.5	Subtracted	1	Low confidence	8870.5	40899
		Ranked	32	Divided			2	16
		Squared	242799	Subtracted			153113	395912
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Ranked	322			High confidence	107	215
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Squared	1.87479	Divided	0	Low confidence	187479	0.00001
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Measured	543.5		1		4.4149	2399.5
		Ranked	330	Subtracted			107	223
		Squared	69.9153	Divided			19.4914	1362.75
		Rooted	23.3131				2.10117	48.9847
				Subtracted			25.6716
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Measured	33356.5			High confidence	8126	41482.5
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]		0.00001	Divided	0		36400000	364
						Low confidence
		Ranked	21883	Subtracted		High confidence	12977	8906
						Low confidence
		Rooted	0.00001	Divided		High confidence	1907880	19.0788
						Low confidence
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Ranked	14977				2.55362	5865
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Squared	160184	Subtracted		High confidence	72283	232467
						Low confidence
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Ranked	24	Divided	1	High confidence	2.4	10
		Squared	322755	Subtracted			145743	468498
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Measured	2394.5	Divided			5.31521	450.5
		Squared	1357.07				28.2513	48.0356
		Rooted	48.9336				2.30547	21.225
				Subtracted			27.7086
2	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Measured	28492			Low confidence	7307	21185
	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Ranked	15915		0	High confidence	11621	4294
	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Squared	475119		1	Low confidence	141563	333556
	cab2. [refseq;acc:nm_033419]	Measured	174	Divided	0	High confidence	17400000	0.00001
	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		543.5		1	Low confidence	4.4149	2399.5
		Ranked	330	Subtracted			107	223
		Squared	69.9153	Divided			19.4914	1362.75
		Rooted	23.3131				2.10117	48.9847
				Subtracted			25.6716
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Measured	33356.5			High confidence	8126	41482.5
	hbs1-like. [refseq;acc:nm_006620]	Ranked	322				107	215
	histone h4. [swissprot;acc:p02304]	Squared	345123		0		71500	273623
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Measured	89	Divided		Low confidence	8900000	0.00001
		Rooted	9.43398				943398
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Squared	1.87479				187479
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Measured	6410	Subtracted		High confidence	6325	85
		Rooted	60.0707				50.8706	9.20014
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Ranked	330	Divided	1	Low confidence	1.47982	223

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.