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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Interaction Map	green	red	network_comparison
226	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	High confidence	269.238	239.991	1.12187
	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	Low confidence	198.538	208.289	1.04911
227	c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319]		206.277	216.404	1.04909
	thrombospondin 3 precursor. [swissprot;acc:p49746]	High confidence	269.234	239.99	1.12186
228	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]		202.088	226.411	1.12036
	u1 small nuclear ribonucleoprotein a (u1 snrnp a protein). [swissprot;acc:p09012]	Low confidence	193.31	202.727	1.04871
229	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	High confidence	202.094	226.401	1.12028
	toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603]	Low confidence	198.276	207.926	1.04867
230	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]	High confidence	267.915	239.35	1.11934
	jm1 protein. [refseq;acc:nm_014008]	Low confidence	206.292	216.308	1.04855
231	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	High confidence	267.881	239.336	1.11927
	mitochondrial import inner membrane translocase subunit tim23. [swissprot;acc:o14925]	Low confidence	210.645	220.722	1.04784
232	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]		204.284	214.032	1.04772
	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	High confidence	267.879	239.336	1.11926
233	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]		267.842	239.32	1.11918
	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	Low confidence	200.129	209.649	1.04757
234	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	High confidence	256.835	287.41	1.11905
	cytochrome p450 51a1 (ec 1.14.13.70) (cypli) (p450li) (sterol 14-alpha demethylase) (lanosterol 14-alpha demethylase) (ldm) (p450-14dm). [swissprot;acc:q16850]	Low confidence	199.38	208.851	1.0475
235	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	High confidence	254.15	227.357	1.11785
	u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579]	Low confidence	193.53	202.654	1.04715
236	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]		202.524	212.056	1.04707
	pp3111 protein. [refseq;acc:nm_022156]	High confidence	254.15	227.357	1.11785
237	single-minded homolog 1. [swissprot;acc:p81133]	Low confidence	202.524	212.056	1.04707
	syntaxin 18. [swissprot;acc:q9p2w9]	High confidence	254.15	227.357	1.11785
238	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Low confidence	191.678	200.699	1.04706
	rd protein. [swissprot;acc:p18615]	High confidence	254.15	227.357	1.11785
239	dual oxidase 2 precursor; dual oxidase-like domains 2; nicotinamide adenine dinucleotide phosphate oxidase; flavoprotein nadph oxidase; nadph thyroid oxidase 2; nadh/nadph thyroid oxidase p138-tox; nadph oxidase/peroxidase duox2. [refseq;acc:nm_014080]	Low confidence	201.086	210.504	1.04684
	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	High confidence	254.15	227.357	1.11785
240	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Low confidence	155.476	162.755	1.04682
241	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	High confidence	254.15	227.357	1.11785
	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Low confidence	155.476	162.755	1.04682
242	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]
	j domain containing protein 1. [swissprot;acc:q9ukb3]	High confidence	254.15	227.357	1.11785
243	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Low confidence	155.476	162.755	1.04682
	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	High confidence	254.15	227.357	1.11785
244	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]
	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Low confidence	155.476	162.755	1.04682
245	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]
	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	High confidence	202.333	226.109	1.11751
246	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		212.363	237.312	1.11748
	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Low confidence	155.476	162.755	1.04682
247	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
	rna-binding protein. [refseq;acc:nm_019027]	High confidence	212.41	237.302	1.11719
248	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	Low confidence	155.476	162.755	1.04682
249	dual oxidase 1 precursor; nadph thyroid oxidase 1; flavoprotein nadph oxidase; nicotinamide adenine dinucleotide phosphate oxidase. [refseq;acc:nm_017434]		201.076	210.487	1.0468
	ns1-associated protein 1. [refseq;acc:nm_006372]	High confidence	212.41	237.302	1.11719
250	diacylglycerol o-acyltransferase 1 (ec 2.3.1.20) (diglyceride acyltransferase) (acat related gene product 1). [swissprot;acc:o75907]	Low confidence	201.051	210.443	1.04671
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	High confidence	212.41	237.302	1.11719

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.