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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	Value Type	description	Filtered	green	network_comparison	red
1	Measured	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	0.00001	36400000	364
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	2394.5	5.31521	450.5
	Ranked	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	0	15915	3.70633	4294
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	1	24	2.4	10
	Squared	cab2. [refseq;acc:nm_033419]	0	7.16592	716592	0.00001
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	1357.07	28.2513	48.0356
	Rooted	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	0.00001	1907880	19.0788
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	48.9336	2.30547	21.225
2	Measured	cab2. [refseq;acc:nm_033419]	0	174	17400000	0.00001
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	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
		mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	0	14977	2.55362	5865
	Squared	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		0.00001	561325	5.61325
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	1357.07	28.2513	48.0356
	Rooted	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	0	0.00001	1240970	12.4097
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	48.9336	2.30547	21.225
3	Measured	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		698.5	3.71868	2597.5
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	109	10900000	0.00001
	Ranked	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	1	28	1.86667	15
		nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	0	11083.9	2.47638	4475.84
	Squared	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	115.48	13.8285	1596.92
		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	0.00001	561325	5.61325
	Rooted	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	26.4292	1.92839	50.9657
		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	0.00001	1240970	12.4097
4	Measured	hbs1-like. [refseq;acc:nm_006620]	1	698.5	3.71868	2597.5
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	89	8900000	0.00001
	Ranked	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	1	28	1.86667	15
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	21883	2.45711	8906
	Squared	hbs1-like. [refseq;acc:nm_006620]	1	115.48	13.8285	1596.92
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	2.81207	281207	0.00001
	Rooted	hbs1-like. [refseq;acc:nm_006620]	1	26.4292	1.92839	50.9657
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	10.4403	1044030	0.00001
5	Measured	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		89	8900000
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	339.5	3.39764	1153.5
	Ranked	cytohesin 4. [swissprot;acc:q9uia0]		28	1.86667	15
		ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	0	11965.7	2.17144	5510.5
	Squared	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		1.87479	187479	0.00001
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	27.2805	11.544	314.926
	Rooted	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	9.43398	943398	0.00001
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	18.4255	1.84327	33.9632
6	Measured	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	89	8900000	0.00001
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	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
		ubiquitin protein ligase. [refseq;acc:nm_130466]	0	15339.2	2.03897	7523
	Squared	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		1.87479	187479	0.00001
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	27.2805	11.544	314.926
	Rooted	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	0	9.43398	943398	0.00001
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	18.4255	1.84327	33.9632
7	Measured	sedlin. [swissprot;acc:o14582]	0	43	4300000	0.00001
		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]	1	339.5	3.39764	1153.5

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.