Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 12912 in total

Network Comparison Type	Divided
Filtered	1
Interaction Map	High confidence

Rank	Value Type	description	green	red	network_comparison	
1	Measured	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	2394.5	450.5	5.31521	
1	Ranked	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [source:refseq;acc:nm_016172]	24	10	2.4	
1	Squared	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	1357.07	48.0356	28.2513	
1	Rooted	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	48.9336	21.225	2.30547	
2	Measured	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	2394.5	450.5	5.31521	
2	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). [source:swissprot;acc:o60476]	28	15	1.86667	
2	Squared	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	1357.07	48.0356	28.2513	
2	Rooted	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	48.9336	21.225	2.30547	
3	Measured	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	698.5	2597.5	3.71868	
3	Ranked	cytohesin 1 (sec7 homolog b2-1). [source:swissprot;acc:q15438]	28	15	1.86667	
3	Squared	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	115.48	1596.92	13.8285	
3	Rooted	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	26.4292	50.9657	1.92839	
4	Measured	hbs1-like. [source:refseq;acc:nm_006620]	698.5	2597.5	3.71868	
4	Ranked	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [source:swissprot;acc:q99418]	28	15	1.86667	
4	Squared	hbs1-like. [source:refseq;acc:nm_006620]	115.48	1596.92	13.8285	
4	Rooted	hbs1-like. [source:refseq;acc:nm_006620]	26.4292	50.9657	1.92839	
5	Measured	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	339.5	1153.5	3.39764	
5	Ranked	cytohesin 4. [source:swissprot;acc:q9uia0]	28	15	1.86667	
5	Squared	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	27.2805	314.926	11.544	
5	Rooted	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	18.4255	33.9632	1.84327	
6	Measured	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	339.5	1153.5	3.39764	
6	Ranked	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739]	28	15	1.86667	
6	Squared	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	27.2805	314.926	11.544	
6	Rooted	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	18.4255	33.9632	1.84327	
7	Measured	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	339.5	1153.5	3.39764	
7	Ranked	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	322	215	1.49767	
7	Squared	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	27.2805	314.926	11.544	
7	Rooted	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	18.4255	33.9632	1.84327	
8	Measured	db83 protein. [source:swissprot;acc:p57088]	339.5	1153.5	3.39764	
8	Ranked	hbs1-like. [source:refseq;acc:nm_006620]	322	215	1.49767	
8	Squared	db83 protein. [source:swissprot;acc:p57088]	27.2805	314.926	11.544	
8	Rooted	db83 protein. [source:swissprot;acc:p57088]	18.4255	33.9632	1.84327	
9	Measured	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	1281.5	398.5	3.21581	
9	Ranked	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [source:refseq;acc:nm_007266]	309	212	1.45755	
9	Squared	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	388.696	37.5863	10.3414	
9	Rooted	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	35.798	19.9625	1.79326	
10	Measured	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	1281.5	398.5	3.21581	
10	Ranked	protein x 0004. [source:refseq;acc:nm_016301]	309	212	1.45755	
10	Squared	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	388.696	37.5863	10.3414	
10	Rooted	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	35.798	19.9625	1.79326	
11	Measured	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	1281.5	398.5	3.21581	
11	Ranked	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	232	337	1.45259	
11	Squared	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	388.696	37.5863	10.3414	
11	Rooted	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	35.798	19.9625	1.79326	
12	Measured	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	1281.5	398.5	3.21581	
12	Ranked	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	232	337	1.45259	
12	Squared	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	388.696	37.5863	10.3414	
12	Rooted	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	35.798	19.9625	1.79326	
13	Measured	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	1281.5	398.5	3.21581	
13	Ranked	protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8]	212.554	288.754	1.3585	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/