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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	Network Comparison Type	red	network_comparison	green
1	Measured	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]	Subtracted	41482.5	8126	33356.5
		rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided	450.5	5.31521	2394.5
	Ranked	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Subtracted	215	107	322
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Divided	10	2.4	24
	Squared		Subtracted	468498	145743	322755
		rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided	48.0356	28.2513	1357.07
	Rooted			21.225	2.30547	48.9336
			Subtracted		27.7086
2	Measured	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		41482.5	8126	33356.5
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided	450.5	5.31521	2394.5
	Ranked	hbs1-like. [refseq;acc:nm_006620]	Subtracted	215	107	322
		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]	Divided	15	1.86667	28
	Squared		Subtracted	407289	143938	263351
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided	48.0356	28.2513	1357.07
	Rooted			21.225	2.30547	48.9336
			Subtracted		27.7086
3	Measured	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		41482.5	8126	33356.5
		homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided	2597.5	3.71868	698.5
	Ranked	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		15	1.86667	28
		rad50-interacting protein 1. [refseq;acc:nm_021930]	Subtracted	337	105	232
	Squared	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		407289	143938	263351
		homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided	1596.92	13.8285	115.48
	Rooted			50.9657	1.92839	26.4292
			Subtracted		24.5365
4	Measured	cytohesin 4. [swissprot;acc:q9uia0]		41482.5	8126	33356.5
		hbs1-like. [refseq;acc:nm_006620]	Divided	2597.5	3.71868	698.5
	Ranked	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		15	1.86667	28
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Subtracted	337	105	232
	Squared	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		407289	143938	263351
		hbs1-like. [refseq;acc:nm_006620]	Divided	1596.92	13.8285	115.48
	Rooted			50.9657	1.92839	26.4292
			Subtracted		24.5365
5	Measured	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		41482.5	8126	33356.5
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Divided	1153.5	3.39764	339.5
	Ranked	cytohesin 4. [swissprot;acc:q9uia0]		15	1.86667	28
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Subtracted	212	97	309
	Squared	cytohesin 4. [swissprot;acc:q9uia0]		407289	143938	263351
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Divided	314.926	11.544	27.2805
	Rooted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Subtracted	145.551	23.245	168.796
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Divided	33.9632	1.84327	18.4255
6	Measured	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]		1153.5	3.39764	339.5
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Subtracted	44490.5	7563	36927.5
	Ranked	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Divided	15	1.86667	28
		protein x 0004. [refseq;acc:nm_016301]	Subtracted	212	97	309
	Squared	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		407289	143938	263351
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Divided	314.926	11.544	27.2805
	Rooted			33.9632	1.84327	18.4255
		pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Subtracted	145.551	23.245	168.796
7	Measured	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		21185	7307	28492
		sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Divided	1153.5	3.39764	339.5

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.