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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 2175 to 2224 of 3228 in total

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

green	Rank	description	network_comparison	red
218.92	1541	myb proto-oncogene protein (c-myb). [swissprot;acc:p10242]	1.01714	222.672
218.925	458	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	1.07764	235.922
218.982	1574	tata element modulatory factor (tmf). [swissprot;acc:p82094]	1.01645	222.585
	1575	scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680]
	1576	nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948]
	1577	ammecr1 protein. [refseq;acc:nm_015365]
	1578	mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406]
218.984	2413	serpin b12. [swissprot;acc:q96p63]	1.00359	218.2
	2414	megsin (tp55) (serpin b7). [swissprot;acc:o75635]
	2415	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]
	2416	oxysterols receptor lxr-beta (liver x receptor beta) (nuclear orphan receptor lxr-beta) (ubiquitously-expressed nuclear receptor) (nuclear receptor ner). [swissprot;acc:p55055]
	2417	upf0183 protein. [swissprot;acc:q9bsu1]
	2418	antithrombin-iii precursor (atiii) (pro0309). [swissprot;acc:p01008]
	2419	translation initiation factor eif-2b alpha subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q14232]
	2420	squamous cell carcinoma antigen 1 (scca-1) (protein t4-a). [swissprot;acc:p29508]
	2422	oxysterols receptor lxr-alpha (liver x receptor alpha) (nuclear orphan receptor lxr-alpha). [swissprot;acc:q13133]
218.991	1752	brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	1.01258	216.271
219.001	881	l-myc-1 proto-oncogene protein. [swissprot;acc:p12524]	1.03928	227.604
219.008	882	n-myc proto-oncogene protein. [swissprot;acc:p04198]	1.03924	227.601
219.014	2395	26s protease regulatory subunit 7 (mss1 protein). [swissprot;acc:p35998]	1.00377	218.192
219.017	883	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [swissprot;acc:q06546]	1.03917	227.596
	884	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545]
	885	nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [swissprot;acc:o00217]
219.018	886	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]
219.024	1701	glucose-6-phosphate 1-dehydrogenase (ec 1.1.1.49) (g6pd). [swissprot;acc:p11413]	1.01363	216.079
	1702	dna-repair protein xrcc3 (x-ray repair cross-complementing protein 3). [swissprot;acc:o43542]
	1703	atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762]
219.037	893	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]	1.03903	227.585
219.05	2326	dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985]	1.00468	220.076
219.081	1734	nucleolar protein family a, member 2; component of the h/aca snornp. [refseq;acc:nm_017838]	1.01296	221.921
	1736	transcription initiation factor iif, alpha subunit (tfiif-alpha) (transcription initiation factor rap74). [swissprot;acc:p35269]
219.09	1756	megf6 (fragment). [sptrembl;acc:o75095]	1.01242	221.811
219.157	1424	sodium/potassium-transporting atpase alpha-1 chain precursor (ec 3.6.3.9) (sodium pump 1) (na+/k+ atpase 1). [swissprot;acc:p05023]	1.02068	214.717
	1425	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]
	1426	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]
	1427	sodium/potassium-transporting atpase alpha-3 chain (ec 3.6.3.9) (sodium pump 3) (na+/k+ atpase 3) (alpha(iii)). [swissprot;acc:p13637]
	1428	sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993]
219.195	1847	brain protein 16. [refseq;acc:nm_016458]	1.011	216.811
219.214	2722	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	1.00043	219.308
219.241	1210	kinesin-like protein kif2 (kinesin-2) (hk2). [swissprot;acc:o00139]	1.02519	224.764
219.251	1205	ny-ren-62 antigen (fragment). [sptrembl;acc:q9y590]	1.02533	224.805
219.264	1196	kinesin protein. [refseq;acc:nm_032559]	1.02551	224.858
219.284	2297	epsin 3. [refseq;acc:nm_017957]	1.00518	218.153
219.332	778	sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7]	1.04848	209.191
219.336	2226	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [swissprot;acc:p23528]	1.00634	217.955
	2227	cofilin, muscle isoform (cofilin 2). [swissprot;acc:q9y281]
	2229	destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282]
	2230	ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [swissprot;acc:q92890]
219.342	1208	signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]	1.02524	224.878
219.366	2148	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]	1.00686	217.871

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.