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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

Rank	description	Interaction Map	Value Type	red	Filtered	green	network_comparison
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	High confidence	Ranked	4294	0	15915	3.70633
	cab2. [refseq;acc:nm_033419]		Squared	0.00001		7.16592	716592
	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Low confidence	Ranked	16	1	32	2
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		Squared	0.00001	0	1.87479	187479
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]		Measured	2399.5	1	543.5	4.4149
			Squared	1362.75		69.9153	19.4914
			Rooted	48.9847		23.3131	2.10117
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	High confidence	Measured	364	0	0.00001	36400000
			Rooted	19.0788			1907880
		Low confidence	Measured	364			36400000
			Rooted	19.0788			1907880
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]		Ranked	5865		14977	2.55362
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	High confidence		10	1	24	2.4
	rad50-interacting protein 1. [refseq;acc:nm_021930]		Measured	450.5		2394.5	5.31521
			Squared	48.0356		1357.07	28.2513
			Rooted	21.225		48.9336	2.30547
2	cab2. [refseq;acc:nm_033419]		Measured	0.00001	0	174	17400000
	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	Low confidence		2399.5	1	543.5	4.4149
			Squared	1362.75		69.9153	19.4914
			Rooted	48.9847		23.3131	2.10117
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		Measured	0.00001	0	89	8900000
			Rooted			9.43398	943398
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		Squared			1.87479	187479
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]		Ranked	223	1	330	1.47982
	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]	High confidence		15		28	1.86667
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Low confidence		8906	0	21883	2.45711
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	High confidence		5865		14977	2.55362
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		Squared	5.61325		0.00001	561325
			Rooted	12.4097			1240970
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		Measured	450.5	1	2394.5	5.31521
			Squared	48.0356		1357.07	28.2513
			Rooted	21.225		48.9336	2.30547
3	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	Low confidence	Ranked	223		330	1.47982
	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]		Measured	2399.5		543.5	4.4149
			Squared	1362.75		69.9153	19.4914
			Rooted	48.9847		23.3131	2.10117
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	High confidence	Ranked	15		28	1.86667
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		Measured	2597.5		698.5	3.71868
			Squared	1596.92		115.48	13.8285
			Rooted	50.9657		26.4292	1.92839
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Low confidence	Squared	0.00001	0	1.87479	187479
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		Measured			89	8900000
			Rooted			9.43398	943398
	neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]		Ranked	9607		20617	2.14604
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	High confidence		4475.84		11083.9	2.47638
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]		Measured	0.00001		109	10900000
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]		Squared	5.61325		0.00001	561325
			Rooted	12.4097			1240970
4	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Low confidence	Ranked	223	1	330	1.47982
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	High confidence		15		28	1.86667

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.