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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 12912 in total

Filtered  : 1
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	Value Type	description	green	network_comparison	red
1	Measured	rad50-interacting protein 1. [refseq;acc:nm_021930]	2394.5	5.31521	450.5
	Ranked	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	24	2.4	10
	Squared	rad50-interacting protein 1. [refseq;acc:nm_021930]	1357.07	28.2513	48.0356
	Rooted		48.9336	2.30547	21.225
2	Measured	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	2394.5	5.31521	450.5
	Ranked	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]	28	1.86667	15
	Squared	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1357.07	28.2513	48.0356
	Rooted		48.9336	2.30547	21.225
3	Measured	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	698.5	3.71868	2597.5
	Ranked	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	28	1.86667	15
	Squared	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	115.48	13.8285	1596.92
	Rooted		26.4292	1.92839	50.9657
4	Measured	hbs1-like. [refseq;acc:nm_006620]	698.5	3.71868	2597.5
	Ranked	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	28	1.86667	15
	Squared	hbs1-like. [refseq;acc:nm_006620]	115.48	13.8285	1596.92
	Rooted		26.4292	1.92839	50.9657
5	Measured	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	339.5	3.39764	1153.5
	Ranked	cytohesin 4. [swissprot;acc:q9uia0]	28	1.86667	15
	Squared	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	27.2805	11.544	314.926
	Rooted		18.4255	1.84327	33.9632
6	Measured	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	339.5	3.39764	1153.5
	Ranked	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	28	1.86667	15
	Squared	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	27.2805	11.544	314.926
	Rooted		18.4255	1.84327	33.9632
7	Measured	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]	339.5	3.39764	1153.5
	Ranked	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	322	1.49767	215
	Squared	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]	27.2805	11.544	314.926
	Rooted		18.4255	1.84327	33.9632
8	Measured	db83 protein. [swissprot;acc:p57088]	339.5	3.39764	1153.5
	Ranked	hbs1-like. [refseq;acc:nm_006620]	322	1.49767	215
	Squared	db83 protein. [swissprot;acc:p57088]	27.2805	11.544	314.926
	Rooted		18.4255	1.84327	33.9632
9	Measured	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	1281.5	3.21581	398.5
	Ranked	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	309	1.45755	212
	Squared	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	388.696	10.3414	37.5863
	Rooted		35.798	1.79326	19.9625
10	Measured	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	1281.5	3.21581	398.5
	Ranked	protein x 0004. [refseq;acc:nm_016301]	309	1.45755	212
	Squared	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	388.696	10.3414	37.5863
	Rooted		35.798	1.79326	19.9625
11	Measured	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	1281.5	3.21581	398.5
	Ranked	rad50-interacting protein 1. [refseq;acc:nm_021930]	232	1.45259	337
	Squared	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	388.696	10.3414	37.5863
	Rooted		35.798	1.79326	19.9625
12	Measured	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	1281.5	3.21581	398.5
	Ranked	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	232	1.45259	337
	Squared	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	388.696	10.3414	37.5863
	Rooted		35.798	1.79326	19.9625
13	Measured	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	1281.5	3.21581	398.5
	Ranked	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	212.554	1.3585	288.754

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.