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 [...,...].
description Gene Network Comparison Type Rank Value Type Filtered Interaction Map red network_comparison green
Results: HTML CSV LaTeX
Showing element 1051 to 1100 of 77072 in total

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description\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
Network Comparison Type\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
Rank\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Value Type\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
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red\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
network\_comparison\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
green\vspace{3pt}}\\
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3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm\_014362]\vspace{3pt}}}&\multirow{6}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
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432.37\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
7317.48\vspace{3pt}}\\\cline{3-3}\cline{6-9}
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266.06\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
8232.52\vspace{3pt}}\\\cline{3-4}\cline{6-9}
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196.008\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
2.146\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
198.154\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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2369\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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70.3295\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.0415\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
71.371\vspace{3pt}}\\\cline{3-4}\cline{6-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
3296\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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45082.7\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1463.5\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
43619.2\vspace{3pt}}\\\hline
\multirow{32}{*}{\parbox{\wcA}{\vspace{3pt}\noindent
3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [source:swissprot;acc:p09110]\vspace{3pt}}}&\multirow{16}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
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346\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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1837.26\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.06708\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
1721.76\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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28.0711\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
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26.8141\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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6794.39\vspace{3pt}}\\\cline{3-4}\cline{6-9}
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1616.87\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.07746\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
1500.63\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
461\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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1.0647\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
24.5318\vspace{3pt}}\\\cline{3-4}\cline{6-9}
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478\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
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1.00854\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
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614\vspace{3pt}}&&&\multirow{2}{*}{\parbox{\wcF}{\vspace{3pt}\noindent
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10641.4\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.03221\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
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1.14283\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
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191.563\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.00511\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
192.541\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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1.04564\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
7263.87\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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72.2607\vspace{3pt}}\\\cline{3-4}\cline{6-9}
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1.01776\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
192.486\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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8168.73\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.02419\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
8366.35\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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43332.8\vspace{3pt}}\\\cline{2-3}\cline{5-9}
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239\vspace{3pt}}&&\multirow{8}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
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175.74\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
6794.39\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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264\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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1837.26\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
115.5\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
1721.76\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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339\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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28.0711\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.257\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
26.8141\vspace{3pt}}\\\cline{3-4}\cline{6-9}
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397\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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5516.4\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
266.01\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
5250.39\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
406\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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1616.87\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
116.24\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
1500.63\vspace{3pt}}\\\cline{3-4}\cline{7-9}
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446\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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26.1189\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.5871\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
24.5318\vspace{3pt}}\\\cline{3-4}\cline{6-9}
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86.7\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
10243.1\vspace{3pt}}\\\cline{3-3}\cline{6-9}
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614\vspace{3pt}}&&&\parbox{\wcF}{\vspace{3pt}\noindent
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10641.4\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
342.8\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
10984.2\vspace{3pt}}\\\cline{3-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
840\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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1\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcF}{\vspace{3pt}\noindent
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27235.1\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
3890.1\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
31125.2\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2061\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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6946.82\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
317.05\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
7263.87\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2331\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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191.563\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
0.978\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
192.541\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2473\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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71.4427\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
0.818\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
72.2607\vspace{3pt}}\\\cline{3-4}\cline{6-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2813\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Ranked\vspace{3pt}}&&\multirow{4}{*}{\parbox{\wcF}{\vspace{3pt}\noindent
Low confidence\vspace{3pt}}}&\parbox{\wcG}{\vspace{3pt}\noindent
195.904\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
3.418\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
192.486\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
3679\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Measured\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
8168.73\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
197.62\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
8366.35\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
3727\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Rooted\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
73.8081\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
2.0851\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
75.8932\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
3846\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
Squared\vspace{3pt}}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
44613.5\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1280.7\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
43332.8\vspace{3pt}}\\\cline{1-3}\cline{6-9}
\multirow{12}{*}{\parbox{\wcA}{\vspace{3pt}\noindent
3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [source:swissprot;acc:p25325]\vspace{3pt}}}&\multirow{8}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
Divided\vspace{3pt}}}&\parbox{\wcC}{\vspace{3pt}\noindent
515\vspace{3pt}}&&&\multirow{4}{*}{\parbox{\wcF}{\vspace{3pt}\noindent
High confidence\vspace{3pt}}}&\parbox{\wcG}{\vspace{3pt}\noindent
19987.6\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.19878\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
23960.7\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
563\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Measured\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
5480.24\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.13536\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
6222.04\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
767\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Rooted\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
63.5181\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.06647\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
67.7402\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
1025\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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205.632\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.03195\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
199.266\vspace{3pt}}\\\cline{3-4}\cline{6-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2218\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
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8425.53\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.03137\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
8689.87\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2252\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Ranked\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
196.562\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.01888\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
192.92\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
2644\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Rooted\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
74.3411\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.03323\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
76.8115\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
4323\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Squared\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
48087\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
1.024\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
46959.8\vspace{3pt}}\\\cline{2-4}\cline{6-9}
&\multirow{4}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
Subtracted\vspace{3pt}}}&\parbox{\wcC}{\vspace{3pt}\noindent
615\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Measured\vspace{3pt}}&&\multirow{4}{*}{\parbox{\wcF}{\vspace{3pt}\noindent
High confidence\vspace{3pt}}}&\parbox{\wcG}{\vspace{3pt}\noindent
5480.24\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
741.8\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
6222.04\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
769\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Rooted\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
63.5181\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
4.2221\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
67.7402\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
805\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Squared\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
19987.6\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
3973.1\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
23960.7\vspace{3pt}}\\\cline{3-4}\cline{7-9}
&&\parbox{\wcC}{\vspace{3pt}\noindent
1048\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
Ranked\vspace{3pt}}&&&\parbox{\wcG}{\vspace{3pt}\noindent
205.632\vspace{3pt}}&\parbox{\wcH}{\vspace{3pt}\noindent
6.366\vspace{3pt}}&\parbox{\wcI}{\vspace{3pt}\noindent
199.266\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/