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	Network Comparison Type	Filtered	Interaction Map	green	red	network_comparison

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	red	network_comparison
1	Measured	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	0.00001	364	36400000
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	2394.5	450.5	5.31521
	Ranked	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	0	15915	4294	3.70633
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	1	24	10	2.4
	Squared	cab2. [refseq;acc:nm_033419]	0	7.16592	0.00001	716592
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	1357.07	48.0356	28.2513
	Rooted	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	0.00001	19.0788	1907880
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	48.9336	21.225	2.30547
2	Measured	cab2. [refseq;acc:nm_033419]	0	174	0.00001	17400000
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	2394.5	450.5	5.31521
	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	15	1.86667
		mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	0	14977	5865	2.55362
	Squared	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		0.00001	5.61325	561325
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	1357.07	48.0356	28.2513
	Rooted	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	0	0.00001	12.4097	1240970
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	48.9336	21.225	2.30547
3	Measured	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		698.5	2597.5	3.71868
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	109	0.00001	10900000
	Ranked	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	1	28	15	1.86667
		nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	0	11083.9	4475.84	2.47638
	Squared	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	115.48	1596.92	13.8285
		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	0.00001	5.61325	561325
	Rooted	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	26.4292	50.9657	1.92839
		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	0.00001	12.4097	1240970
4	Measured	hbs1-like. [refseq;acc:nm_006620]	1	698.5	2597.5	3.71868
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	89	0.00001	8900000
	Ranked	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	1	28	15	1.86667
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	21883	8906	2.45711
	Squared	hbs1-like. [refseq;acc:nm_006620]	1	115.48	1596.92	13.8285
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	2.81207	0.00001	281207
	Rooted	hbs1-like. [refseq;acc:nm_006620]	1	26.4292	50.9657	1.92839
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	10.4403	0.00001	1044030
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	1153.5	3.39764
	Ranked	cytohesin 4. [swissprot;acc:q9uia0]		28	15	1.86667
		ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	0	11965.7	5510.5	2.17144
	Squared	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		1.87479	0.00001	187479
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	27.2805	314.926	11.544
	Rooted	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	9.43398	0.00001	943398
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	18.4255	33.9632	1.84327
6	Measured	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	89	0.00001	8900000
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	339.5	1153.5	3.39764
	Ranked	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		28	15	1.86667
		ubiquitin protein ligase. [refseq;acc:nm_130466]	0	15339.2	7523	2.03897
	Squared	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		1.87479	0.00001	187479
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	27.2805	314.926	11.544
	Rooted	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	0	9.43398	0.00001	943398
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	18.4255	33.9632	1.84327
7	Measured	sedlin. [swissprot;acc:o14582]	0	43	0.00001	4300000
		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	1153.5	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.