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

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Showing element 36 to 85 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green
3	CDK6	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Ranked	Subtracted	Low confidence	223	107	330
			Squared	Divided		1362.75	19.4914	69.9153
			Rooted			48.9847	2.10117	23.3131
				Subtracted			25.6716
	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Measured	Divided	High confidence	2597.5	3.71868	698.5
			Squared			1596.92	13.8285	115.48
			Rooted			50.9657	1.92839	26.4292
				Subtracted			24.5365
	PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Ranked	Divided		15	1.86667	28
			Squared	Subtracted		407289	143938	263351
	PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Measured			41482.5	8126	33356.5
	RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked			337	105	232
	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Measured		Low confidence	21185	7307	28492
4	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Squared			332411	140997	473408
	BEST1	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Measured			36474.3	7035.1	43509.4
	CDK6	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Ranked	Divided		223	1.47982	330
	HBS1L	hbs1-like. [refseq;acc:nm_006620]	Measured		High confidence	2597.5	3.71868	698.5
			Squared			1596.92	13.8285	115.48
			Rooted			50.9657	1.92839	26.4292
				Subtracted			24.5365
	LAMP2	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Measured	Divided	Low confidence	2399.5	4.4149	543.5
			Ranked	Subtracted		223	107	330
			Squared	Divided		1362.75	19.4914	69.9153
			Rooted			48.9847	2.10117	23.3131
				Subtracted			25.6716
	PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Ranked	Divided	High confidence	15	1.86667	28
			Squared	Subtracted		407289	143938	263351
	PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Measured			41482.5	8126	33356.5
	RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked			337	105	232
5	BEST2	vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682]	Squared		Low confidence	332411	140997	473408
	BEST4	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Measured			36469.3	7034	43503.3
	CPD	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Rooted			202.235	23.27	178.965
	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Measured	Divided	High confidence	1153.5	3.39764	339.5
			Squared			314.926	11.544	27.2805
			Rooted			33.9632	1.84327	18.4255
	LAMP2	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Ranked		Low confidence	223	1.47982	330
	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Rooted	Subtracted	High confidence	145.551	23.245	168.796
	OSBPL6	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Measured	Divided	Low confidence	736.5	2.86965	2113.5
			Ranked	Subtracted		318	78	240
			Squared	Divided		128.386	8.23493	1057.25
			Rooted			27.1385	1.69401	45.9728
	PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Measured	Subtracted	High confidence	41482.5	8126	33356.5
	PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Ranked	Divided		15	1.86667	28
			Squared	Subtracted		407289	143938	263351
	XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Ranked			212	97	309
6	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Measured		Low confidence	36360.3	7008.5	43368.8
	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]	Ranked		High confidence	212	97	309
	DNASE2B	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Squared		Low confidence	299771	124874	424645
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Measured	Divided	High confidence	1153.5	3.39764	339.5
			Squared			314.926	11.544	27.2805

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.