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	Value Type	Network Comparison Type	Filtered	red	Interaction Map	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

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

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.