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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Value Type  : Measured
Network Comparison Type  : Divided

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

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.