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

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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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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX
Showing element 1251 to 1300 of 3228 in total
Value Type: Ranked
Network Comparison Type: Divided
Interaction Map: High confidence
Filtered: 1

\def\wcA{0.16666666666667\textwidth}
\def\wcB{0.16666666666667\textwidth}
\def\wcC{0.16666666666667\textwidth}
\def\wcD{0.16666666666667\textwidth}
\def\wcE{0.16666666666667\textwidth}
\begin{longtable}{|c|c|c|c|c|}
\hline
\parbox{\wcA}{\vspace{3pt}\noindent
Rank\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
description\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
red\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
green\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
network\_comparison\vspace{3pt}}\\
\hline
\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1251\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [source:swissprot;acc:q13418]\vspace{3pt}}&\multirow{11}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
219.354\vspace{3pt}}}&\multirow{5}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
224.7\vspace{3pt}}}&\multirow{11}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.02437\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1252\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [source:swissprot;acc:q96dr4]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1253\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ras suppressor protein 1 (rsu-1) (rsp-1). [source:swissprot;acc:q15404]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1254\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [source:swissprot;acc:q13283]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1255\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [source:swissprot;acc:q9un86]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
1256\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm\_030966]\vspace{3pt}}&&\parbox{\wcD}{\vspace{3pt}\noindent
224.699\vspace{3pt}}&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
1257\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
espin. [source:refseq;acc:nm\_031475]\vspace{3pt}}&&\multirow{5}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
224.7\vspace{3pt}}}&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1258\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [source:swissprot;acc:p10635]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1259\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [source:refseq;acc:nm\_006832]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1260\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
lim and senescent cell antigen-like domains 2; ilk-binding protein. [source:refseq;acc:nm\_017980]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1261\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
d(4) dopamine receptor (d(2c) dopamine receptor). [source:swissprot;acc:p21917]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1262\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
keratin associated protein 9.2. [source:refseq;acc:nm\_031961]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
219.353\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
224.678\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.02428\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1263\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [source:swissprot;acc:p53778]\vspace{3pt}}&\multirow{15}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
171.231\vspace{3pt}}}&\multirow{15}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
167.177\vspace{3pt}}}&\multirow{15}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.02425\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1264\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [source:swissprot;acc:q9nya1]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1265\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [source:swissprot;acc:q9h3h5]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1266\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [source:swissprot;acc:q96qb1]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1267\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [source:swissprot;acc:p49137]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1268\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
neuronal acetylcholine receptor protein, alpha-6 chain precursor. [source:swissprot;acc:q15825]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1269\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nitrogen fixation cluster-like. [source:refseq;acc:nm\_014301]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1270\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [source:swissprot;acc:q9y3m8]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1271\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [source:swissprot;acc:q92502]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1272\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
neuronal acetylcholine receptor protein, alpha-2 chain precursor. [source:swissprot;acc:q15822]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1273\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [source:refseq;acc:nm\_004635]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1274\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [source:swissprot;acc:q16539]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1275\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
neuronal acetylcholine receptor protein, alpha-4 chain precursor. [source:swissprot;acc:p43681]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1276\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
neuronal acetylcholine receptor protein, alpha-3 chain precursor. [source:swissprot;acc:p32297]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1277\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [source:swissprot;acc:q9nra0]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1278\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sestrin 3. [source:swissprot;acc:p58005]\vspace{3pt}}&\multirow{13}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
218.368\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
213.219\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.02415\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1279\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sestrin 2 (hi95). [source:swissprot;acc:p58004]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-5}
\parbox{\wcA}{\vspace{3pt}\noindent
1280\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4a11 precursor (ec 1.14.15.3) (cypiva11) (fatty acid omega-hydroxylase) (p-450 hk omega) (lauric acid omega-hydroxylase) (cyp4aii) (p450-hl-omega). [source:swissprot;acc:q02928]\vspace{3pt}}&&\multirow{11}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
213.22\vspace{3pt}}}&\multirow{11}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.02414\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1281\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4f3 (ec 1.14.13.30) (cypivf3) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [source:swissprot;acc:q08477]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1282\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [source:swissprot;acc:p98187]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1283\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
likely ortholog of rat cytochrome p450 4x1. [source:refseq;acc:nm\_178033]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1284\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [source:swissprot;acc:q9hcs2]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1285\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [source:swissprot;acc:p78329]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1286\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [source:swissprot;acc:q9hbi6]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1287\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [source:sptrembl;acc:q9ntl5]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1288\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cytochrome p450 4b1 (ec 1.14.14.1) (cypivb1) (p450-hp). [source:swissprot;acc:p13584]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1289\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
flotillin-1. [source:swissprot;acc:o75955]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1290\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sestrin 1 (p53-regulated protein pa26). [source:swissprot;acc:q9y6p5]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1291\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
hyaluronan synthase 2 (ec 2.4.1.212) (hyaluronate synthase 2) (hyaluronic acid synthase 2) (ha synthase 2). [source:swissprot;acc:q92819]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
221.093\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
226.399\vspace{3pt}}&\multirow{5}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.024\vspace{3pt}}}\\\cline{1-4}
\parbox{\wcA}{\vspace{3pt}\noindent
1292\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
caspase-7 precursor (ec 3.4.22.-) (ice-like apoptotic protease 3) (ice-lap3) (apoptotic protease mch-3) (cmh-1). [source:swissprot;acc:p55210]\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
233.942\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
228.46\vspace{3pt}}}&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1293\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
apopain precursor (ec 3.4.22.-) (cysteine protease cpp32) (yama protein) (cpp-32) (caspase-3) (casp-3) (srebp cleavage activity 1) (sca-1). [source:swissprot;acc:p42574]\vspace{3pt}}&&&\\\cline{1-4}
\parbox{\wcA}{\vspace{3pt}\noindent
1294\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
hyaluronan synthase 1 (ec 2.4.1.212) (hyaluronate synthase 1) (hyaluronic acid synthase 1) (ha synthase 1) (huhas1). [source:swissprot;acc:q92839]\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
221.093\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
226.399\vspace{3pt}}}&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1295\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
hyaluronan synthase 3 (ec 2.4.1.212) (hyaluronate synthase 3) (hyaluronic acid synthase 3) (ha synthase 3). [source:swissprot;acc:o00219]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1296\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [source:swissprot;acc:p57057]\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
209.062\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
204.174\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.02394\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
1297\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
proline oxidase, mitochondrial precursor (ec 1.5.3.-) (proline dehydrogenase). [source:swissprot;acc:o43272]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1298\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.12) (e2) (pdc-e2) (70 kda mitochondrial autoantigen of primary biliary cirrhosis) (pbc) (m2 antigen complex 70 kda subunit). [source:swissprot;acc:p10515]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
206.482\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
211.404\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.02384\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1299\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [source:swissprot;acc:o75439]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
217.635\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
212.575\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.0238\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
1300\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [source:swissprot;acc:q10713]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
217.634\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
212.576\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.02379\vspace{3pt}}\\\hline
nd{longtable}

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/