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	network_comparison	red

Results: HTML CSV LaTeX

Showing element 1 to 50 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	Value Type	green	network_comparison	red
1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Subtracted	Ranked	322	107	215
	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	8126	41482.5
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Divided	Ranked	24	2.4	10
		Subtracted	Squared	322755	145743	468498
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided	Measured	2394.5	5.31521	450.5
			Squared	1357.07	28.2513	48.0356
			Rooted	48.9336	2.30547	21.225
		Subtracted			27.7086
2	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		Measured	33356.5	8126	41482.5
	hbs1-like. [refseq;acc:nm_006620]		Ranked	322	107	215
	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		28	1.86667	15
		Subtracted	Squared	263351	143938	407289
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided	Measured	2394.5	5.31521	450.5
			Squared	1357.07	28.2513	48.0356
			Rooted	48.9336	2.30547	21.225
		Subtracted			27.7086
3	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Divided	Ranked	28	1.86667	15
		Subtracted	Squared	263351	143938	407289
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		Measured	33356.5	8126	41482.5
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided		698.5	3.71868	2597.5
			Squared	115.48	13.8285	1596.92
			Rooted	26.4292	1.92839	50.9657
		Subtracted			24.5365
	rad50-interacting protein 1. [refseq;acc:nm_021930]		Ranked	232	105	337
4	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Divided		28	1.86667	15
		Subtracted	Squared	263351	143938	407289
	cytohesin 4. [swissprot;acc:q9uia0]		Measured	33356.5	8126	41482.5
	hbs1-like. [refseq;acc:nm_006620]	Divided		698.5	3.71868	2597.5
			Squared	115.48	13.8285	1596.92
			Rooted	26.4292	1.92839	50.9657
		Subtracted			24.5365
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		Ranked	232	105	337
5	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		Rooted	168.796	23.245	145.551
	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		Measured	33356.5	8126	41482.5
	cytohesin 4. [swissprot;acc:q9uia0]	Divided	Ranked	28	1.86667	15
		Subtracted	Squared	263351	143938	407289
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Divided	Measured	339.5	3.39764	1153.5
			Squared	27.2805	11.544	314.926
			Rooted	18.4255	1.84327	33.9632
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Subtracted	Ranked	309	97	212
6	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Divided		28	1.86667	15
		Subtracted	Squared	263351	143938	407289
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Divided	Measured	339.5	3.39764	1153.5
			Squared	27.2805	11.544	314.926
			Rooted	18.4255	1.84327	33.9632
	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Subtracted		168.796	23.245	145.551
	protein x 0004. [refseq;acc:nm_016301]		Ranked	309	97	212
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]		Measured	36927.5	7563	44490.5
7	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]			28492	7307	21185
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided	Ranked	322	1.49767	215

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.