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	Network Comparison Type	Hugo	description	Value 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	Network Comparison Type	Hugo	description	Interaction Map	red	green	network_comparison
1	Divided	CPD	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Low confidence	16	32	2
		UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	High confidence	10	24	2.4
	Subtracted	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		215	322	107
		LAMP1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Low confidence	223	330
2	Divided	no value	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
		LAMP1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Low confidence	223	330	1.47982
	Subtracted	CDK4	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]				107
		HBS1L	hbs1-like. [refseq;acc:nm_006620]	High confidence	215	322
3	Divided	CDK4	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
		PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	High confidence	15	28	1.86667
	Subtracted	CDK6	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Low confidence	223	330	107
		RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	High confidence	337	232	105
4	Divided	CDK6	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Low confidence	223	330	1.47982
		PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	High confidence	15	28	1.86667
	Subtracted	LAMP2	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Low confidence	223	330	107
		RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	High confidence	337	232	105
5	Divided	LAMP2	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Low confidence	223	330	1.47982
		PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	High confidence	15	28	1.86667
	Subtracted	OSBPL6	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Low confidence	318	240	78
		XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	High confidence	212	309	97
6	Divided	OSBPL6	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Low confidence	318	240	1.325
		PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	High confidence	15	28	1.86667
	Subtracted	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]		212	309	97
		OSBPL3	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	Low confidence	318	240	78
7	Divided	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	High confidence	215	322	1.49767
		OSBPL3	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	Low confidence	318	240	1.325
	Subtracted	OSBPL7	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]				78
		UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	High confidence	288.754	212.554	76.2
8	Divided	HBS1L	hbs1-like. [refseq;acc:nm_006620]		215	322	1.49767
		OSBPL7	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]	Low confidence	318	240	1.325
	Subtracted	JMJD1C	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]		305.472	247.246	58.226
		JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	High confidence	288	362	74
9	Divided	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Low confidence	58	44	1.31818
		XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	High confidence	212	309	1.45755
	Subtracted	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]		288	362	74
		TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Low confidence	305.399	247.213	58.186
10	Divided	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]	High confidence	212	309	1.45755
		SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Low confidence	58	44	1.31818
	Subtracted	JMJD1A	jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433]		305.303	247.169	58.134
		SMPD2	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]	High confidence	288	362	74
11	Divided	BEST1	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Low confidence	37.318	28.4944	1.30966
		RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	High confidence	337	232	1.45259
	Subtracted	PRSS3	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030]	Low confidence	304.548	246.824	57.724
		TMEM33	db83 protein. [swissprot;acc:p57088]	High confidence	288	362	74
12	Divided	BEST4	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Low confidence	37.3475	28.5242	1.30933
		RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	High confidence	337	232	1.45259
	Subtracted	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]		266.856	336.233	69.377
		PRSS1	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]	Low confidence	304.359	246.737	57.622
13	Divided	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		37.9984	29.1831	1.30207
		UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	High confidence	288.754	212.554	1.3585

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.