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 Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1 to 50 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Network Comparison Type	Interaction Map	red	green	network_comparison
1	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Divided	Low confidence	16	32	2
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Subtracted	High confidence	215	322	107
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]		Low confidence	223	330
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Divided	High confidence	10	24	2.4
2	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	Subtracted	Low confidence	223	330	107
	hbs1-like. [refseq;acc:nm_006620]		High confidence	215	322
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Divided	Low confidence	223	330	1.47982
	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	15	28	1.86667
3	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		Low confidence	223	330	1.47982
	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Subtracted				107
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Divided	High confidence	15	28	1.86667
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Subtracted		337	232	105
4	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Divided	Low confidence	223	330	1.47982
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		High confidence	15	28	1.86667
	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Subtracted	Low confidence	223	330	107
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		High confidence	337	232	105
5	cytohesin 4. [swissprot;acc:q9uia0]	Divided		15	28	1.86667
	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]		Low confidence	223	330	1.47982
	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Subtracted		318	240	78
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]		High confidence	212	309	97
6	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Divided		15	28	1.86667
	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	Subtracted	Low confidence	318	240	78
	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Divided				1.325
	protein x 0004. [refseq;acc:nm_016301]	Subtracted	High confidence	212	309	97
7	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided		215	322	1.49767
	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]		Low confidence	318	240	1.325
	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]	Subtracted				78
	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]		High confidence	288.754	212.554	76.2
8	hbs1-like. [refseq;acc:nm_006620]	Divided		215	322	1.49767
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Subtracted		288	362	74
	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]	Divided	Low confidence	318	240	1.325
	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	Subtracted		305.472	247.246	58.226
9	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Divided		58	44	1.31818
	gbp protein isoform a. [refseq;acc:nm_017870]	Subtracted		305.399	247.213	58.186
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]		High confidence	288	362	74
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Divided		212	309	1.45755
10	jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433]	Subtracted	Low confidence	305.303	247.169	58.134
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Divided		58	44	1.31818
	protein x 0004. [refseq;acc:nm_016301]		High confidence	212	309	1.45755
	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Subtracted		288	362	74
11	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Divided	Low confidence	37.318	28.4944	1.30966
	db83 protein. [swissprot;acc:p57088]	Subtracted	High confidence	288	362	74
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided		337	232	1.45259
	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030]	Subtracted	Low confidence	304.548	246.824	57.724
12	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]		High confidence	266.856	336.233	69.377
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided		337	232	1.45259
	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]	Subtracted	Low confidence	304.359	246.737	57.622
	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Divided		37.3475	28.5242	1.30933
13	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	Subtracted	High confidence	266.856	336.233	69.377
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Divided	Low confidence	37.9984	29.1831	1.30207

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.