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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Value Type Gene Interaction Map Rank description Filtered red green Network Comparison Type network_comparison
Results: HTML CSV LaTeX Showing element 3130 to 3179 of 29840 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
red
green
Network Comparison Type
network_comparison
1063 polyadenylate-binding protein 4 (poly(a)-binding protein 4) (pabp 4) (inducible poly(a)-binding protein) (ipabp) (activated-platelet protein-1) (app-1). [swissprot;acc:q13310] 5791.05 6316.61 Subtracted 525.56
1064 dead-box protein. [refseq;acc:nm_018665] 5719.01 6248.6 Divided 1.0926
polyadenylate-binding protein 1 (poly(a)-binding protein 1) (pabp 1). [swissprot;acc:p11940] 5791.05 6316.61 Subtracted 525.56
1065 dehydrodolichyl diphosphate synthase. [refseq;acc:nm_024887] 6350.81 6874.88 524.07
dna-(apurinic or apyrimidinic site) lyase (ec 4.2.99.18) (ap endonuclease 1) (apex nuclease) (apen) (ref-1 protein). [swissprot;acc:p27695] 6393.81 6984.94 Divided 1.09245
1066 junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923] 5732.73 6256.63 Subtracted 523.9
leucyl-trna synthetase. [refseq;acc:nm_020117] 5417.06 5917.79 Divided 1.09244
1067 probable leucyl-trna synthetase, mitochondrial precursor (ec 6.1.1.4) (leucine--trna ligase) (leurs). [swissprot;acc:q15031] 5417.07 1.09243
tax interaction protein 1. [refseq;acc:nm_014604] 5732.73 6256.63 Subtracted 523.9
1068 argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424] 5857.48 6380.4 522.92
exocyst complex component sec15a. [swissprot;acc:q8tag9] 6201.54 6774.35 Divided 1.09237
1069 elongation factor 2 (ef-2). [swissprot;acc:p13639] 5494.73 6001.08 1.09215
glutamate carboxypeptidase-like protein 2 precursor. [swissprot;acc:q96kn2] 6251.32 6774.12 Subtracted 522.8
1070 metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416] 5494.73 6001.08 Divided 1.09215
thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] 6042.31 6565.03 Subtracted 522.72
1071 40s ribosomal protein s30. [swissprot;acc:q05472] 5893.97 6416.07 522.1
metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832] 5494.73 6001.08 Divided 1.09215
1072 electron transfer flavoprotein beta-subunit (beta-etf). [swissprot;acc:p38117] 7794.41 8316.04 Subtracted 521.63
prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765] 5207.39 5687.2 Divided 1.09214
1073 dimethylaniline monooxygenase [n-oxide forming] 5 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 5) (fmo 5) (dimethylaniline oxidase 5). [swissprot;acc:p49326] 5364.3 5885.48 Subtracted 521.18
prefoldin subunit 2 (hspc231). [swissprot;acc:q9uhv9] 5207.39 5687.2 Divided 1.09214
1074 putative dimethylaniline monooxygenase [n-oxide forming] 6 (ec 1.14.13.8) (flavin-containing monooxygenase 6) (fmo 6) (dimethylaniline oxidase 6). [swissprot;acc:o60774] 5364.3 5885.48 Subtracted 521.18
uxt protein (ubiquitously expressed transcript protein) (hspc024). [swissprot;acc:q9ubk9] 5207.39 5687.2 Divided 1.09214
1075 eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884] 4359.82 4880.99 Subtracted 521.17
phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [swissprot;acc:q92903] 6441.56 7034.86 Divided 1.09211
1076 ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447] 4565.34 5085.92 Subtracted 520.58
solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4] 6439.63 7032.19 Divided 1.09202
1077 myosin light chain 1, skeletal muscle isoform (mlc1f) (a1 catalytic) (alkali). [swissprot;acc:p05976] 4565.34 5085.92 Subtracted 520.58
solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9] 6439.66 7032.22 Divided 1.09202
1078 myosin light chain 1, slow-twitch muscle b/ventricular isoform (mlc1sb) (alkali). [swissprot;acc:p08590] 4565.34 5085.92 Subtracted 520.58
solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2] 6439.63 7032.19 Divided 1.09202
1079 nadh-ubiquinone oxidoreductase 13 kda-a subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-a) (ci-13kd-a). [swissprot;acc:o75380] 4565.34 5085.92 Subtracted 520.58
solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183] 6439.66 7032.22 Divided 1.09202
1080 myosin light chain 1, slow-twitch muscle a isoform (mlc1sa) (alkali). [swissprot;acc:p14649] 4565.34 5085.92 Subtracted 520.58
secretory carrier-associated membrane protein 2. [swissprot;acc:o15127] 6439.3 7031.73 Divided 1.092
1081 myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829] 4565.34 5085.92 Subtracted 520.58
secretory carrier-associated membrane protein 3. [swissprot;acc:o14828] 6439.3 7031.73 Divided 1.092
1082 dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513] 5364.77 5884.89 Subtracted 520.12
secretory carrier-associated membrane protein 1. [swissprot;acc:o15126] 6439.35 7031.8 Divided 1.092
1083 exocyst complex component sec15b. [swissprot;acc:q9y2d4] 6213.51 6785.04 1.09198
phosphomannomutase 2 (ec 5.4.2.8) (pmm 2). [swissprot;acc:o15305] 5511.96 6031.95 Subtracted 519.99
1084 adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566] 7444.28 7964 519.72
phosphatidate cytidylyltransferase 2 (ec 2.7.7.41) (cdp-diglyceride synthetase 2) (cdp-diglyceride pyrophosphorylase 2) (cdp- diacylglycerol synthase 2) (cds 2) (ctp:phosphatidate cytidylyltransferase 2) (cdp-dag synthase 2) (cdp-dg synthetase 2). [swissprot;acc:o95674] 6437.49 7029.22 Divided 1.09192
1085 glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [swissprot;acc:p57057] 6520.28 7119.28 1.09187
peroxiredoxin 4 (ec 1.11.1.-) (prx-iv) (thioredoxin peroxidase ao372) (thioredoxin-dependent peroxide reductase a0372) (antioxidant enzyme aoe372) (aoe37-2). [swissprot;acc:q13162] 6343.26 6862.94 Subtracted 519.68
1086 dimethylaniline monooxygenase [n-oxide forming] 2 (ec 1.14.13.8) (pulmonary flavin-containing monooxygenase 2) (fmo 2) (dimethylaniline oxidase 2) (fmo 1b1). [swissprot;acc:q99518] 5365.06 5884.52 519.46
proline oxidase, mitochondrial precursor (ec 1.5.3.-) (proline dehydrogenase). [swissprot;acc:o43272] 6520.28 7119.28 Divided 1.09187
1087 junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923] 5732.73 6256.63 1.09139
suppressor of var1, 3-like 1. [refseq;acc:nm_003171] 6439.79 6959.21 Subtracted 519.42
1088 bag-family molecular chaperone regulator-1 (bcl-2 binding athanogene- 1) (bag-1) (glucocorticoid receptor-associated protein rap46). [swissprot;acc:q99933]

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/