Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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 Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2858 to 2907 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
1429 similar to kinase suppressor of ras (fragment). [sptrembl;acc:q8ivt5] Divided 5880.37 6334.71 1.07726
1430 dual specificity mitogen-activated protein kinase kinase 2 (ec 2.7.1.-) (map kinase kinase 2) (mapkk 2) (erk activator kinase 2) (mapk/erk kinase 2) (mek2). [swissprot;acc:p36507]
transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453] Subtracted 4025.3 4474.3 449
1431 limkain beta 2. [refseq;acc:nm_025140] Divided 5796.03 6243.78 1.07725
lin-7 homolog c; lin-7 protein 3. [refseq;acc:nm_018362] Subtracted 5743.26 6191.96 448.7
1432 glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [swissprot;acc:p47897] 5500.92 5949.26 448.34
zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409] Divided 5658.58 6095.62 1.07723
1433 dna topoisomerase iii alpha (ec 5.99.1.2). [swissprot;acc:q13472] 5692.34 6131.71 1.07719
spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [swissprot;acc:p19623] Subtracted 5500.92 5949.26 448.34
1434 glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250]
myosin viia. [swissprot;acc:q13402] Divided 5759.68 6203.63 1.07708
1435 glutamyl trna synthetase. [sptrembl;acc:o14563] Subtracted 5500.92 5949.26 448.34
ubiquitin-conjugating enzyme e2 b (ec 6.3.2.19) (ubiquitin-protein ligase b) (ubiquitin carrier protein b) (hr6b) (hhr6b) (e2-17 kda). [swissprot;acc:p23567] Divided 5759.68 6203.63 1.07708
1436 casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138] Subtracted 4307.12 4755.03 447.91
ubiquitin-conjugating enzyme e2 a (ec 6.3.2.19) (ubiquitin-protein ligase a) (ubiquitin carrier protein a) (hr6a) (hhr6a). [swissprot;acc:p49459] Divided 5759.68 6203.63 1.07708
1437 casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784] Subtracted 4307.12 4755.03 447.91
glycerol-3-phosphate dehydrogenase, mitochondrial precursor (ec 1.1.99.5) (gpd-m) (gpdh-m). [swissprot;acc:p43304] Divided 6089.43 6558.02 1.07695
1438 b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] Subtracted 3886.62 3438.82 447.8
exocyst complex component sec10 (hsec10). [swissprot;acc:o00471] Divided 6721.25 7238.34 1.07693
1439 camp response element-binding protein cre-bpa. [refseq;acc:nm_004904] 5658.8 6093.56 1.07683
limkain beta 2. [refseq;acc:nm_025140] Subtracted 5796.03 6243.78 447.75
1440 acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954] 6296.52 6743.85 447.33
peroxisomal membrane protein pex14 (peroxin-14) (peroxisomal membrane anchor protein pex14) (pts1 receptor docking protein). [swissprot;acc:o75381] Divided 6522.96 7023.77 1.07678
1441 hepatocyte nuclear factor 3-gamma (hnf-3g) (forkhead box protein a3) (fork head-related protein fkh h3). [swissprot;acc:p55318] Subtracted 5728.92 6175.99 447.07
proteasome subunit alpha type 7 (ec 3.4.25.1) (proteasome subunit rc6-1) (proteasome subunit xapc7). [swissprot;acc:o14818] Divided 6216.12 6693.38 1.07678
1442 proteasome subunit alpha type 4 (ec 3.4.25.1) (proteasome component c9) (macropain subunit c9) (multicatalytic endopeptidase complex subunit c9) (proteasome subunit l). [swissprot;acc:p25789] Subtracted 6213.27 6659.39 446.12
proteasome subunit alpha type 7-like (ec 3.4.25.1). [swissprot;acc:q8taa3] Divided 6216.13 6693.13 1.07674
1443 calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805] Subtracted 5657.71 6103.57 445.86
ketohexokinase (ec 2.7.1.3) (hepatic fructokinase). [swissprot;acc:p50053] Divided 5450.9 5869.07 1.07672
1444 dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2] Subtracted 5657.71 6103.54 445.83
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] Divided 5450.9 5869.07 1.07672
1445 cd109; gov system alloantigens on platelets. [refseq;acc:nm_133493] 5117.85 5510.45 1.07671
zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1] Subtracted 5657.71 6103.54 445.83
1446 dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]
peptidyl-prolyl cis-trans isomerase nima-interacting 1 (ec 5.2.1.8) (rotamase pin1) (ppiase pin1). [swissprot;acc:q13526] Divided 5117.85 5510.45 1.07671
1447 calcipressin 2 (thyroid hormone-responsive protein zaki-4) (down syndrome candidate region 1-like 1) (myocyte-enriched calcineurin interacting protein 2) (mcip2). [swissprot;acc:q14206] Subtracted 5657.72 6103.52 445.8
iroquois-class homeodomain protein irx-4 (iroquois homeobox protein 4). [swissprot;acc:p78413] Divided 5117.85 5510.45 1.07671
1448 calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8] Subtracted 5657.72 6103.52 445.8
dpy-30-like protein. [swissprot;acc:q9c005] Divided 5602.01 6031.05 1.07659
1449 methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898] Subtracted 6436.73 6882.16 445.43
rab coupling protein; rab-interacting recycling protein; rab effector protein; rab11-family interacting protein 1. [refseq;acc:nm_025151] Divided 5602.01 6031.05 1.07659
1450 calmegin precursor. [swissprot;acc:o14967] Subtracted 5910.06 6355.08 445.02
gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470] Divided 5602.01 6031.05 1.07659
1451 calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [swissprot;acc:p27824] Subtracted 5910.06 6355.08 445.02
neighbor of cox4. [swissprot;acc:o43402] Divided 5602.01 6031.05 1.07659
1452 protein c14orf122 (cgi-112). [swissprot;acc:q9y3b6]
soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] Subtracted 5910.06 6355.08 445.02
1453 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] Divided 5602.01 6031.05 1.07659
rna (guanine-7-) methyltransferase. [refseq;acc:nm_003799] Subtracted 5910.06 6355.08 445.02
1454 ubiquitin-like protein sumo-1 conjugating enzyme (ec 6.3.2.19) (sumo- 1-protein ligase) (ubiquitin carrier protein) (ubiquitin-conjugating enzyme ubce2a) (p18). [swissprot;acc:p50550] Divided 5770.74 6210.65 1.07623

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.
- http://analysis.yellowcouch.org/