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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

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