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.

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

Rank	Value Type	Interaction Map	description	network_comparison	green	Filtered	red
1	Measured	High confidence	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	36400000	0.00001	0	364
			rad50-interacting protein 1. [refseq;acc:nm_021930]	5.31521	2394.5	1	450.5
		Low confidence	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	4.4149	543.5		2399.5
			mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	36400000	0.00001	0	364
	Ranked	High confidence	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	3.70633	15915		4294
			putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	2.4	24	1	10
		Low confidence	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	2	32		16
			mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	2.55362	14977	0	5865
	Squared	High confidence	cab2. [refseq;acc:nm_033419]	716592	7.16592		0.00001
			rad50-interacting protein 1. [refseq;acc:nm_021930]	28.2513	1357.07	1	48.0356
		Low confidence	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	187479	1.87479	0	0.00001
			lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	19.4914	69.9153	1	1362.75
	Rooted	High confidence	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	1907880	0.00001	0	19.0788
			rad50-interacting protein 1. [refseq;acc:nm_021930]	2.30547	48.9336	1	21.225
		Low confidence	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	2.10117	23.3131		48.9847
			mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	1907880	0.00001	0	19.0788
2	Measured	High confidence	cab2. [refseq;acc:nm_033419]	17400000	174		0.00001
			rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	5.31521	2394.5	1	450.5
		Low confidence	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	4.4149	543.5		2399.5
			homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	8900000	89	0	0.00001
	Ranked	High confidence	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]	1.86667	28	1	15
			mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	2.55362	14977	0	5865
		Low confidence	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	1.47982	330	1	223
			mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	2.45711	21883	0	8906
	Squared	High confidence	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	561325	0.00001		5.61325
			rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	28.2513	1357.07	1	48.0356
		Low confidence	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	19.4914	69.9153		1362.75
			homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	187479	1.87479	0	0.00001
	Rooted	High confidence	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	1240970	0.00001		12.4097
			rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	2.30547	48.9336	1	21.225
		Low confidence	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	2.10117	23.3131		48.9847
			homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	943398	9.43398	0	0.00001
3	Measured	High confidence	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	3.71868	698.5	1	2597.5
			pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	10900000	109	0	0.00001
		Low confidence	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	4.4149	543.5	1	2399.5
			homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	8900000	89	0	0.00001
	Ranked	High confidence	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	1.86667	28	1	15
			nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	2.47638	11083.9	0	4475.84
		Low confidence	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	1.47982	330	1	223
			neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]	2.14604	20617	0	9607
	Squared	High confidence	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	13.8285	115.48	1	1596.92
			transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	561325	0.00001	0	5.61325
		Low confidence	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	19.4914	69.9153	1	1362.75
			homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	187479	1.87479	0	0.00001
	Rooted	High confidence	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1.92839	26.4292	1	50.9657
			transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	1240970	0.00001	0	12.4097
		Low confidence	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	2.10117	23.3131	1	48.9847
			homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	943398	9.43398	0	0.00001
4	Measured	High confidence	hbs1-like. [refseq;acc:nm_006620]	3.71868	698.5	1	2597.5
			homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	8900000	89	0	0.00001

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.