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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Value Type  : Measured
Network Comparison Type  : Divided

Rank	green	description	red	Filtered	Interaction Map	network_comparison
1	0.00001	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	364	0	High confidence	36400000
					Low confidence
	543.5	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	2399.5	1		4.4149
	2394.5	rad50-interacting protein 1. [refseq;acc:nm_021930]	450.5		High confidence	5.31521
2	89	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0.00001	0	Low confidence	8900000
	174	cab2. [refseq;acc:nm_033419]			High confidence	17400000
	543.5	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	2399.5	1	Low confidence	4.4149
	2394.5	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	450.5		High confidence	5.31521
3	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	0.00001	0	Low confidence	8900000
	109	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]			High confidence	10900000
	543.5	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	2399.5	1	Low confidence	4.4149
	698.5	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	2597.5		High confidence	3.71868
4	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0.00001	0	Low confidence	8900000
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]			High confidence
	543.5	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	2399.5	1	Low confidence	4.4149
	698.5	hbs1-like. [refseq;acc:nm_006620]	2597.5		High confidence	3.71868
5	17.5166	jumonji protein. [swissprot;acc:q92833]	0.00001	0	Low confidence	1751660
	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]			High confidence	8900000
	339.5	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1153.5	1		3.39764
	2113.5	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	736.5		Low confidence	2.86965
6	0.00001	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	13	0		1300000
	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0.00001		High confidence	8900000
	339.5	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1153.5	1		3.39764
	2113.5	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	736.5		Low confidence	2.86965
7	0.00001	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	2.31962	0		231962
	43	sedlin. [swissprot;acc:o14582]	0.00001		High confidence	4300000
	339.5	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]	1153.5	1		3.39764
	2113.5	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]	736.5		Low confidence	2.86965
8	43	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0.00001	0	High confidence	4300000
	339.5	db83 protein. [swissprot;acc:p57088]	1153.5	1		3.39764
	5058.5	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]	3278		Low confidence	1.54317
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	85	0		75.4118
9	10.6048	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]	383.762			36.1876
	1281.5	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	398.5	1	High confidence	3.21581
	5058.5	n33 protein. [swissprot;acc:q13454]	3278		Low confidence	1.54317
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	85	0	High confidence	75.4118
10	5.56738	serpin b12. [swissprot;acc:q96p63]	199.549		Low confidence	35.8425
	1281.5	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	398.5	1	High confidence	3.21581
	5058.5	implantation-associated protein. [refseq;acc:nm_032121]	3278		Low confidence	1.54317
	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	85	0	High confidence	75.4118
11	5.56738	serpin b12. [swissprot;acc:q96p63]	199.549			35.8425
	5.71669	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	199.249		Low confidence	34.8539
	1281.5	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	398.5	1	High confidence	3.21581
	2950.5	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	1917.64		Low confidence	1.53861
12	5.71669	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	199.249	0	High confidence	34.8539
	58	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	859		Low confidence	14.8103
	1281.5	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	398.5	1	High confidence	3.21581
	2954.24	gbp protein isoform a. [refseq;acc:nm_017870]	1921.96		Low confidence	1.5371
13	47	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	1363	0	High confidence	29
	115.385	fk506-binding protein 6 (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (36 kda fk506 binding protein) (fkbp- 36) (immunophilin fkbp36). [swissprot;acc:o75344]	8.11997		Low confidence	14.21

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.