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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 25824 in total

Filtered  : 1
Interaction Map  : High confidence

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

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.