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.
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 [...,...].
description Gene Network Comparison Type Rank Value Type Filtered Interaction Map red network_comparison green
Results: HTML CSV LaTeX
Showing element 19220 to 19269 of 77072 in total
Filtered: 1

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description\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
Network Comparison Type\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
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network\_comparison\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
green\vspace{3pt}}\\
\hline
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dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [source:swissprot;acc:p25205]\vspace{3pt}}}&\multirow{5}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
Divided\vspace{3pt}}}&\parbox{\wcC}{\vspace{3pt}\noindent
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4619.81\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
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57.3394\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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1891\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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233.828\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.01051\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
231.395\vspace{3pt}}\\\cline{3-8}
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44360.6\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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8061.98\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03041\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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202.3\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
4.648\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
197.652\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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1391\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
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72.0529\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
2.6676\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
74.7205\vspace{3pt}}\\\cline{3-3}\cline{5-8}
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1777\vspace{3pt}}&&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
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55.3706\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.9688\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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233.828\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
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46172.8\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1812.2\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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1909\vspace{3pt}}&&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
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18356\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
2153.7\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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1965\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
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4619.81\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
345.64\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
4965.45\vspace{3pt}}\\\cline{3-3}\cline{5-8}
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2346\vspace{3pt}}&&\multirow{11}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
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8061.98\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
245.14\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
8307.12\vspace{3pt}}\\\cline{1-4}\cline{6-8}
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dna replication licensing factor mcm4 (cdc21 homolog) (p1-cdc21). [source:swissprot;acc:p33991]\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
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201.225\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
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1.03526\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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8050.47\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
243.35\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
8293.82\vspace{3pt}}\\\cline{1-4}\cline{6-8}
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dna replication licensing factor mcm5 (cdc46 homolog) (p1-cdc46). [source:swissprot;acc:p33992]\vspace{3pt}}}&\multirow{8}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
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72.0349\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
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1673\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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1.01415\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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24133.1\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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1.05894\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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46129.5\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.04002\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
44354.6\vspace{3pt}}\\\cline{3-8}
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57.6219\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.01478\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
58.4734\vspace{3pt}}\\\cline{3-8}
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8056.29\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03032\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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4.481\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
197.813\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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72.0349\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
2.6316\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
74.6665\vspace{3pt}}\\\cline{3-8}
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1624\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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228.496\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
3.233\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
231.729\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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1918\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
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21994.2\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
2138.9\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
24133.1\vspace{3pt}}\\\cline{3-3}\cline{5-8}
&&\parbox{\wcC}{\vspace{3pt}\noindent
1961\vspace{3pt}}&&\parbox{\wcE}{\vspace{3pt}\noindent
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46129.5\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1774.9\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
44354.6\vspace{3pt}}\\\cline{3-8}
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2148\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
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High confidence\vspace{3pt}}&\parbox{\wcF}{\vspace{3pt}\noindent
5047.2\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
297.48\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
5344.68\vspace{3pt}}\\\cline{3-3}\cline{5-8}
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2370\vspace{3pt}}&&\parbox{\wcE}{\vspace{3pt}\noindent
Low confidence\vspace{3pt}}&\parbox{\wcF}{\vspace{3pt}\noindent
8056.29\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
244.28\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
8300.57\vspace{3pt}}\\\cline{3-8}
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2448\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Rooted\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
High confidence\vspace{3pt}}&\parbox{\wcF}{\vspace{3pt}\noindent
57.6219\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
0.8515\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
58.4734\vspace{3pt}}\\\hline
\multirow{8}{*}{\parbox{\wcA}{\vspace{3pt}\noindent
dna replication licensing factor mcm6 (p105mcm). [source:swissprot;acc:q14566]\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
Divided\vspace{3pt}}}&\parbox{\wcC}{\vspace{3pt}\noindent
1333\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Ranked\vspace{3pt}}&\multirow{13}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
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202.379\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.02215\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
197.993\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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1538\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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71.9417\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03637\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
74.5584\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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2238\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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8031.96\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03133\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
8283.63\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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2749\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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45969.7\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03701\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
44329.1\vspace{3pt}}\\\cline{2-4}\cline{6-8}
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1313\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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202.379\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
4.386\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
197.993\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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71.9417\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
2.6167\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
74.5584\vspace{3pt}}\\\cline{3-4}\cline{6-8}
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2133\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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8031.96\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
251.67\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
8283.63\vspace{3pt}}\\\cline{3-4}\cline{6-8}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2510\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Squared\vspace{3pt}}&&\parbox{\wcF}{\vspace{3pt}\noindent
45969.7\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1640.6\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
44329.1\vspace{3pt}}\\\cline{1-4}\cline{6-8}
\multirow{5}{*}{\parbox{\wcA}{\vspace{3pt}\noindent
dna replication licensing factor mcm7 (cdc47 homolog) (p1.1-mcm3). [source:swissprot;acc:p33993]\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
Divided\vspace{3pt}}}&\parbox{\wcC}{\vspace{3pt}\noindent
1146\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Ranked\vspace{3pt}}&&\parbox{\wcF}{\vspace{3pt}\noindent
201.363\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.02343\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
196.754\vspace{3pt}}\\\cline{3-4}\cline{6-8}
&&\parbox{\wcC}{\vspace{3pt}\noindent
1372\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Rooted\vspace{3pt}}&&\parbox{\wcF}{\vspace{3pt}\noindent
72.347\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03705\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
75.0276\vspace{3pt}}\\\cline{3-4}\cline{6-8}
&&\parbox{\wcC}{\vspace{3pt}\noindent
1923\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Squared\vspace{3pt}}&&\parbox{\wcF}{\vspace{3pt}\noindent
46138.2\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.04073\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
44332.4\vspace{3pt}}\\\cline{3-4}\cline{6-8}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2208\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Measured\vspace{3pt}}&&\parbox{\wcF}{\vspace{3pt}\noindent
8091.15\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
1.03138\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
8345.08\vspace{3pt}}\\\cline{2-4}\cline{6-8}
&\parbox{\wcB}{\vspace{3pt}\noindent
Subtracted\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
1135\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Ranked\vspace{3pt}}&&\parbox{\wcF}{\vspace{3pt}\noindent
201.363\vspace{3pt}}&\parbox{\wcG}{\vspace{3pt}\noindent
4.609\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
196.754\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/