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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 66312 in total

Filtered  : 1

Rank	Hugo	Network Comparison Type	Value Type	description	Interaction Map	red	green	network_comparison
1	no value	Subtracted	Measured	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	41482.5	33356.5	8126
	CPD	Divided	Ranked	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Low confidence	16	32	2
		Subtracted	Measured			40899	32028.5	8870.5
			Squared			395912	242799	153113
	HLX		Ranked	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	High confidence	215	322	107
	LAMP1	Divided	Measured	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Low confidence	2399.5	543.5	4.4149
			Squared			1362.75	69.9153	19.4914
			Rooted			48.9847	23.3131	2.10117
		Subtracted	Ranked			223	330	107
			Rooted			48.9847	23.3131	25.6716
	RINT1	Divided	Measured	rad50-interacting protein 1. [refseq;acc:nm_021930]	High confidence	450.5	2394.5	5.31521
			Squared			48.0356	1357.07	28.2513
			Rooted			21.225	48.9336	2.30547
		Subtracted						27.7086
	UBAC1	Divided	Ranked	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]		10	24	2.4
		Subtracted	Squared			468498	322755	145743
2	no value	Divided	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]		15	28	1.86667
		Subtracted	Squared			407289	263351	143938
	BEST1			bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Low confidence	333556	475119	141563
	CDK4	Divided	Measured	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		2399.5	543.5	4.4149
			Squared			1362.75	69.9153	19.4914
			Rooted			48.9847	23.3131	2.10117
		Subtracted	Ranked			223	330	107
			Rooted			48.9847	23.3131	25.6716
	HBS1L		Ranked	hbs1-like. [refseq;acc:nm_006620]	High confidence	215	322	107
	LAMP1	Divided		lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Low confidence	223	330	1.47982
	MRPS17	Subtracted	Measured	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		21185	28492	7307
	PSCD1			cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	High confidence	41482.5	33356.5	8126
	RHOBTB2	Divided		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		450.5	2394.5	5.31521
			Squared			48.0356	1357.07	28.2513
			Rooted			21.225	48.9336	2.30547
		Subtracted						27.7086
3	BEST4		Squared	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Low confidence	333506	475045	141539
	CDK4	Divided	Ranked	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		223	330	1.47982
	CDK6		Measured	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]		2399.5	543.5	4.4149
			Squared			1362.75	69.9153	19.4914
			Rooted			48.9847	23.3131	2.10117
		Subtracted	Ranked			223	330	107
			Rooted			48.9847	23.3131	25.6716
	HLX	Divided	Measured	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	High confidence	2597.5	698.5	3.71868
			Squared			1596.92	115.48	13.8285
			Rooted			50.9657	26.4292	1.92839
		Subtracted						24.5365
	PSCD1	Divided	Ranked	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		15	28	1.86667
		Subtracted	Squared			407289	263351	143938
	PSCD2		Measured	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		41482.5	33356.5	8126
	RINT1		Ranked	rad50-interacting protein 1. [refseq;acc:nm_021930]		337	232	105
	SLC25A43		Measured	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Low confidence	21185	28492	7307
4	no value		Squared	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		332411	473408	140997
	BEST1		Measured	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]		36474.3	43509.4	7035.1

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
- Hugo is the HGNC identifier if it exists
- 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.