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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

Rank	green	Interaction Map	Value Type	Filtered	description	network_comparison	red
1	0.00001	High confidence	Measured	0	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	36400000	364
			Rooted			1907880	19.0788
		Low confidence	Measured			36400000	364
			Rooted			1907880	19.0788
	1.87479		Squared		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	187479	0.00001
	7.16592	High confidence			cab2. [refseq;acc:nm_033419]	716592
	23.3131	Low confidence	Rooted	1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	2.10117	48.9847
	24	High confidence	Ranked		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	2.4	10
	32	Low confidence			carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	2	16
	48.9336	High confidence	Rooted		rad50-interacting protein 1. [refseq;acc:nm_021930]	2.30547	21.225
	69.9153	Low confidence	Squared		lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	19.4914	1362.75
	543.5		Measured			4.4149	2399.5
	1357.07	High confidence	Squared		rad50-interacting protein 1. [refseq;acc:nm_021930]	28.2513	48.0356
	2394.5		Measured			5.31521	450.5
	14977	Low confidence	Ranked	0	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	2.55362	5865
	15915	High confidence			adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	3.70633	4294
2	0.00001		Squared		nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	561325	5.61325
			Rooted			1240970	12.4097
	1.87479	Low confidence	Squared		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	187479	0.00001
	9.43398		Rooted		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	943398
	23.3131			1	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	2.10117	48.9847
	28	High confidence	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]	1.86667	15
	48.9336		Rooted		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	2.30547	21.225
	69.9153	Low confidence	Squared		cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	19.4914	1362.75
	89		Measured	0	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	8900000	0.00001
	174	High confidence			cab2. [refseq;acc:nm_033419]	17400000
	330	Low confidence	Ranked	1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	1.47982	223
	543.5		Measured		cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	4.4149	2399.5
	1357.07	High confidence	Squared		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	28.2513	48.0356
	2394.5		Measured			5.31521	450.5
	14977		Ranked	0	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	2.55362	5865
	21883	Low confidence			mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	2.45711	8906
3	0.00001	High confidence	Squared		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	561325	5.61325
			Rooted			1240970	12.4097
	1.87479	Low confidence	Squared		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	187479	0.00001
	9.43398		Rooted		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	943398
	23.3131			1	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	2.10117	48.9847
	26.4292	High confidence			homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1.92839	50.9657
	28		Ranked		cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	1.86667	15
	69.9153	Low confidence	Squared		cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	19.4914	1362.75
	89		Measured	0	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	8900000	0.00001
	109	High confidence			pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	10900000
	115.48		Squared	1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	13.8285	1596.92
	330	Low confidence	Ranked		cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	1.47982	223
	543.5		Measured		cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	4.4149	2399.5
	698.5	High confidence			homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	3.71868	2597.5
	11083.9		Ranked	0	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	2.47638	4475.84
	20617	Low confidence			neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]	2.14604	9607
4	0.823905		Squared		guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	82390.5	0.00001
	2.81207	High confidence			pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	281207

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.