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	Interaction Map	Filtered	green	Network Comparison Type	red	network_comparison

Results: HTML CSV LaTeX

Showing element 1 to 50 of 9634 in total

Value Type  : Measured
Network Comparison Type  : Divided

Rank	description	Interaction Map	Filtered	green	red	network_comparison
1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Low confidence	1	543.5	2399.5	4.4149
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	High confidence	0	0.00001	364	36400000
		Low confidence
	rad50-interacting protein 1. [refseq;acc:nm_021930]	High confidence	1	2394.5	450.5	5.31521
2	cab2. [refseq;acc:nm_033419]		0	174	0.00001	17400000
	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	Low confidence	1	543.5	2399.5	4.4149
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		0	89	0.00001	8900000
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	High confidence	1	2394.5	450.5	5.31521
3	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Low confidence		543.5	2399.5	4.4149
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	High confidence		698.5	2597.5	3.71868
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Low confidence	0	89	0.00001	8900000
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	High confidence		109		10900000
4	hbs1-like. [refseq;acc:nm_006620]		1	698.5	2597.5	3.71868
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Low confidence	0	89	0.00001	8900000
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	High confidence
	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Low confidence	1	543.5	2399.5	4.4149
5	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	High confidence	0	89	0.00001	8900000
	jumonji protein. [swissprot;acc:q92833]	Low confidence		17.5166		1751660
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	High confidence	1	339.5	1153.5	3.39764
	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Low confidence		2113.5	736.5	2.86965
6	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	High confidence	0	89	0.00001	8900000
	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	Low confidence		0.00001	13	1300000
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	High confidence	1	339.5	1153.5	3.39764
	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	Low confidence		2113.5	736.5	2.86965
7	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]
	sedlin. [swissprot;acc:o14582]	High confidence	0	43	0.00001	4300000
	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]		1	339.5	1153.5	3.39764
	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	Low confidence	0	0.00001	2.31962	231962
8	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]			6410	85	75.4118
	db83 protein. [swissprot;acc:p57088]	High confidence	1	339.5	1153.5	3.39764
	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]	Low confidence		5058.5	3278	1.54317
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	High confidence	0	43	0.00001	4300000
9	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]			6410	85	75.4118
	n33 protein. [swissprot;acc:q13454]	Low confidence	1	5058.5	3278	1.54317
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	High confidence		1281.5	398.5	3.21581
	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]	Low confidence	0	10.6048	383.762	36.1876
10	implantation-associated protein. [refseq;acc:nm_032121]		1	5058.5	3278	1.54317
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	High confidence	0	6410	85	75.4118
	serpin b12. [swissprot;acc:q96p63]	Low confidence		5.56738	199.549	35.8425
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	High confidence	1	1281.5	398.5	3.21581
11	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	Low confidence	0	5.71669	199.249	34.8539
	serpin b12. [swissprot;acc:q96p63]	High confidence		5.56738	199.549	35.8425
	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	Low confidence	1	2950.5	1917.64	1.53861
12	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	High confidence		1281.5	398.5	3.21581
	gbp protein isoform a. [refseq;acc:nm_017870]	Low confidence		2954.24	1921.96	1.5371
	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	High confidence	0	5.71669	199.249	34.8539
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Low confidence		58	859	14.8103
13	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	High confidence		47	1363	29
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]		1	1281.5	398.5	3.21581

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.