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

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Showing element 51 to 100 of 66312 in total

Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Value Type	Interaction Map	red	green	network_comparison
4	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	PSCD2	Divided	Ranked	High confidence	15	28	1.86667
			Subtracted	Squared		407289	263351	143938
	cytohesin 4. [swissprot;acc:q9uia0]	PSCD4		Measured		41482.5	33356.5	8126
	hbs1-like. [refseq;acc:nm_006620]	HBS1L	Divided			2597.5	698.5	3.71868
				Squared		1596.92	115.48	13.8285
				Rooted		50.9657	26.4292	1.92839
			Subtracted					24.5365
	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	LAMP2	Divided	Measured	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
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	no value		Squared		332411	473408	140997
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	RHOBTB2		Ranked	High confidence	337	232	105
5	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	MRPS17		Rooted		145.551	168.796	23.245
	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	CPD			Low confidence	202.235	178.965	23.27
	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	PSCD3		Measured	High confidence	41482.5	33356.5	8126
	cytohesin 4. [swissprot;acc:q9uia0]	PSCD4	Divided	Ranked		15	28	1.86667
			Subtracted	Squared		407289	263351	143938
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	JPH3	Divided	Measured		1153.5	339.5	3.39764
				Squared		314.926	27.2805	11.544
				Rooted		33.9632	18.4255	1.84327
	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	LAMP2		Ranked	Low confidence	223	330	1.47982
	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	OSBPL6		Measured		736.5	2113.5	2.86965
				Squared		128.386	1057.25	8.23493
				Rooted		27.1385	45.9728	1.69401
			Subtracted	Ranked		318	240	78
	vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682]	BEST2		Squared		332411	473408	140997
	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	BEST4		Measured		36469.3	43503.3	7034
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	XAB1		Ranked	High confidence	212	309	97
6	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	MRPS17		Rooted	Low confidence	145.551	168.796	23.245
	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	PSCD3	Divided	Ranked	High confidence	15	28	1.86667
			Subtracted	Squared		407289	263351	143938
	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	DNASE2B			Low confidence	299771	424645	124874
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	JPH2	Divided	Measured	High confidence	1153.5	339.5	3.39764
				Squared		314.926	27.2805	11.544
				Rooted		33.9632	18.4255	1.84327
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	no value	Subtracted	Measured	Low confidence	36360.3	43368.8	7008.5
	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	OSBPL3	Divided			736.5	2113.5	2.86965
				Squared		128.386	1057.25	8.23493
				Rooted		27.1385	45.9728	1.69401
			Subtracted	Ranked		318	240	78
	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	OSBPL6	Divided					1.325
	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	PANK1	Subtracted	Rooted	High confidence	145.551	168.796	23.245
	protein x 0004. [refseq;acc:nm_016301]	ATPBD1C		Ranked		212	309	97
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	UBAC1		Measured		44490.5	36927.5	7563
7	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	MRPS17				21185	28492	7307
				Squared	Low confidence	106226	192141	85915
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	HLX	Divided	Ranked	High confidence	215	322	1.49767
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	SLC25A43	Subtracted	Rooted	Low confidence	145.551	168.796	23.245

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.