by ddolbae01 » Fri Aug 31, 2018 6:46 am
I performed 2nd Banjo analysis using 177 variables (10 clniopathological variables and 167 gene variables)
From 1hr analysis to 24hrs analysis (three times per each time), I got the best structure at 6hr analysis.
Therefore, I ordered the Banjo analysis for 36 hours, three times with initial structure of the 6hr analysis result.
Finally, I got the 2nd Bayesian structure (S2) with best score (-33520.784, 80.64%).
In 3rd degree Markov Blanket (MB), 49 variables were chosen: Metastasis, Bone metastasis, Brain metastasis, lung metastasis, Estrogen R, Progesteron R, HER2, Chemotherapy and 41 genes (signature genes)
In GeNIe structure, the accuracy of all 49 nodes was 0.836623 and accuracy of metastasis was 0.953425 (AUC = 0.88961 for metastasis =0 and 1)
In another analysis using prediction code, prediction for metastasis =1 was over 98% in almost cases.
Now, I am planning to use Efrain code (official name ?) and Ghong structure code. However, because the small number of variables is acceptable to use the Efrain code yet, I have to reduce the number of variables below 20 to use the Efrain code.
Therefore, I'd like to get the comment from professor Yoo and Roy.
I attached the results of 2nd Banjo analysis
- Attachments
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- BCmeta36hrb.2018.08.27.12.29.50.dot.png (1.01 MiB) Viewed 4547 times
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- Banjo results(BCBM) (3).xlsx
- (8.61 KiB) Downloaded 174 times
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- dataForGeNIe.csv.pred (1).csv
- (38.71 KiB) Downloaded 152 times
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- dataForGeNIe.csv
- (35.63 KiB) Downloaded 154 times
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- dataForGeNIe.xdsl
- (32.64 KiB) Downloaded 156 times
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- 3rdMB.txt
- (1.17 KiB) Downloaded 167 times
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- 3rdMB.dot.png (286.34 KiB) Viewed 4547 times