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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

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Showing element 2225 to 2274 of 3228 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	green	network_comparison	red
2225	indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [swissprot;acc:o95050]	220.108	1.00637	221.509
2226	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [swissprot;acc:p23528]	219.336	1.00634	217.955
2227	cofilin, muscle isoform (cofilin 2). [swissprot;acc:q9y281]
2228	nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570]	213.153		211.81
2229	destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282]	219.336		217.955
2230	ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [swissprot;acc:q92890]
2231	hrd1 protein isoform a; synoviolin1. [refseq;acc:nm_032431]	223.246	1.00633	221.842
2232	43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702]	214.194	1.00632	215.547
2233	tripartite motif protein 3 (ring finger protein 22) (brain-expressed ring finger protein). [swissprot;acc:o75382]	203.691	1.00631	202.414
2234	seven in absentia homolog 1. [refseq;acc:nm_003031]	225.005	1.00625	223.608
2235	arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320]	199.711	1.0062	200.95
2236	protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981]	224.337	1.00618	222.959
2237	bromodomain-containing protein 3 (ring3-like protein). [swissprot;acc:q15059]	224.343		222.965
2238	bromodomain-containing protein 4 (hunk1 protein). [swissprot;acc:o60885]	224.337		222.959
2239	testis-specific bromodomain protein. [refseq;acc:nm_001726]	224.336		222.958
2240	nag14 protein. [refseq;acc:nm_022143]	224.337		222.959
2241	bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440]	224.338		222.96
2242	integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [swissprot;acc:q9y287]	207.915	1.00617	209.197
2243	integral membrane protein 2c (transmembrane protein bri3) (npd018). [swissprot;acc:q9nqx7]
2244	integral membrane protein 2a (e25 protein). [swissprot;acc:o43736]
2245	fibulin-2 precursor. [swissprot;acc:p98095]	190.448	1.00614	191.618
2246	mitochondrial ribosomal protein l18. [refseq;acc:nm_014161]	224.943	1.0061	223.58
2247	sipl protein. [refseq;acc:nm_018269]	207.346	1.00609	208.609
2248	kinesin-like protein kif3c. [swissprot;acc:o14782]	220.377	1.00608	219.045
2249	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	179.999	1.00607	181.091
2250	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	165.058	1.00606	164.064
2251	e-1 enzyme. [refseq;acc:nm_021204]	207.061		208.315
2252	delta-aminolevulinic acid dehydratase (ec 4.2.1.24) (porphobilinogen synthase) (aladh). [swissprot;acc:p13716]	218.498	1.00605	217.185
2253	kinesin-like protein kif3b (microtubule plus end-directed kinesin motor 3b) (hh0048). [swissprot;acc:o15066]	220.371	1.00604	219.047
2254	ubiquitin-conjugating enzyme e2-17 kda 3 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2(17)kb 3). [swissprot;acc:p47986]	194.22	1.00598	193.065
2255	alpha-fetoprotein enhancer binding protein (at motif-binding factor) (at-binding transcription factor 1). [swissprot;acc:q15911]	203.57	1.00595	202.366
2256	seven in absentia homolog 2. [refseq;acc:nm_005067]	224.869	1.00592	223.546
2257	nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [swissprot;acc:q15274]	211.315	1.00591	212.563
2258	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543]	225.191	1.00582	223.888
2259	meiotic recombination protein dmc1/lim15 homolog. [swissprot;acc:q14565]	214.606	1.00569	213.391
2260	leng5 protein. [refseq;acc:nm_024075]	220.351	1.00566	221.599
2261	tryptophanyl-trna synthetase (ec 6.1.1.2) (tryptophan--trna ligase) (trprs) (ifp53) (hwrs). [swissprot;acc:p23381]
2262	ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916]
2263	tryptophanyl-trna synthetase, mitochondrial precursor (ec 6.1.1.2) (tryptophan--trna ligase) (trprs) ((mt)trprs). [swissprot;acc:q9ugm6]
2264	thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [refseq;acc:nm_022445]
2265	mitotic spindle assembly checkpoint protein mad2a (mad2-like 1) (hsmad2). [swissprot;acc:q13257]	210.416	1.00561	211.597
2266	probable cation-transporting atpase 1 (ec 3.6.1.-). [swissprot;acc:q9nq11]
2267	tata box binding protein (transcription initiation factor tfiid) (tata-box factor) (tata sequence-binding protein) (tbp). [swissprot;acc:p20226]
2268	tripartite motif protein 2. [swissprot;acc:q9c040]	203.437	1.00556	202.312
2269	26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	218.627		217.419
2270	mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362]	208.69	1.00554	207.54
2271	dimethylaniline monooxygenase [n-oxide forming] 5 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 5) (fmo 5) (dimethylaniline oxidase 5). [swissprot;acc:p49326]	215.436	1.00551	216.622
2272	putative dimethylaniline monooxygenase [n-oxide forming] 6 (ec 1.14.13.8) (flavin-containing monooxygenase 6) (fmo 6) (dimethylaniline oxidase 6). [swissprot;acc:o60774]
2273	mitogen-activated protein kinase kinase kinase 7 interacting protein 1 (tak1-binding protein 1). [swissprot;acc:q15750]	211.858	1.00546	213.015
2274	6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209]	214.801	1.00542	213.642

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.