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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 38536 in total

Filtered  : 0
Network Comparison Type  : Divided

Rank	description	network_comparison	Value Type	green	Interaction Map	red
7	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	1.69451	Ranked	6812	Low confidence	11543
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	187479	Squared	1.87479	High confidence	0.00001
		943398	Rooted	9.43398
	jumonji protein. [swissprot;acc:q92833]	14096.2	Squared	0.140962	Low confidence
	sedlin. [swissprot;acc:o14582]	4300000	Measured	43	High confidence
	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	231962		0.00001	Low confidence	2.31962
8	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	75.4118		6410		85
		11098	Squared	19295.9		1.73869
	ero1-like. [refseq;acc:nm_014584]	159148		0.00001	High confidence	1.59148
		905539	Rooted			9.05539
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	1.68629	Ranked	13216	Low confidence	22286
	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	360555	Rooted	0.00001		3.60555
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	1.89918	Ranked	21888	High confidence	11525
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	4300000	Measured	43		0.00001
9	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	75.4118		6410		85
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	1.68629	Ranked	13216	Low confidence	22286
	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	4000	Squared	0.00001		0.04
	jumonji protein. [swissprot;acc:q92833]	300407	Rooted	3.00407		0.00001
	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	85207.1	Squared	0.00001	High confidence	0.852071
		774597	Rooted			7.74597
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	1.89918	Ranked	21888		11525
	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]	36.1876	Measured	10.6048	Low confidence	383.762
10	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	1.88805	Ranked	14178.1	High confidence	7509.39
	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	82390.5	Squared	0.823905		0.00001
		768115	Rooted	7.68115
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	1.68629	Ranked	13216	Low confidence	22286
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	75.4118	Measured	6410	High confidence	85
	serpin b12. [swissprot;acc:q96p63]	35.8425		5.56738	Low confidence	199.549
	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	115981	Rooted	0.00001		1.15981
	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]	1084.62	Squared	0.0577305		62.6156
11	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	1.66289	Ranked	8257		13730.5
	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	34.8539	Measured	5.71669		199.249
	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	1.86092	Ranked	6248	High confidence	11627
	sedlin. [swissprot;acc:o14582]	43763.3	Squared	0.437633		0.00001
		655744	Rooted	6.55744
	serpin b12. [swissprot;acc:q96p63]	8.67149		1.18697	Low confidence	10.2928
		35.8425	Measured	5.56738	High confidence	199.549
		813.196	Squared	0.0289898	Low confidence	23.5744
12	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	1.65028	Ranked	1933		3190
	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]	1.81023		5208.84	High confidence	9429.18
	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	8.45791	Rooted	1.2188	Low confidence	10.3085
		34.8539	Measured	5.71669	High confidence	199.249
		789.312	Squared	0.0297673	Low confidence	23.4957
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	14.8103	Measured	58		859
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	43763.3	Squared	0.437633	High confidence	0.00001
		655744	Rooted	6.55744
13	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	29	Measured	47		1363
	dok-like protein. [refseq;acc:nm_024872]	28994.1	Squared	0.00001		0.289941
		591608	Rooted			5.91608
	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]	14.21	Measured	115.385	Low confidence	8.11997

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.