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However, the conclusion might be specific to the datasets and the specific techniques used in their work.
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Second, we fitted a structural equation model, adapted to the longitudinal design of our dataset and the specific epidemiological questions of interest.
This file contains the GEO ID (if applicable), the number of tumors with low or high S14 expression, the array platform used, the PubMed ID references for each dataset, and the specific analysis for which each dataset was used.
Nevertheless, we would like to point out that these conclusions might be specific to the six breast cancer datasets analyzed here and the specific techniques we employed to perform these analyses.
Poisson regression analysis was performed on each imputed dataset and the imputation-specific coefficients were combined using Rubin's rules.
The pros and cons of these datasets and their specific features are discussed in the next section.
Both the transcriptome-wide searches by GA-SVM and the network-specific searches by GA-KNN were applied to the three tissue-specific datasets and the all tissue combined dataset.
We evaluated the same models in the location-specific datasets and the results were consistent with the combined results (Supplementary File S3).
This article details the developments and improvements that have been made to MetFrag since the original publication, including a detailed evaluation on several datasets and specific examples to demonstrate the use of MetFrag2.2 in small molecule identification.
In the datasets and outcomes studied, and for the specific conventional analyses we used, we have shown that use of the bootstrap does not lead to different p-values, SE and CI estimates compared to conventional methods.
However overall we have to mention that it seems that in some cases performance of the classification methods depends on the dataset and a specific method cannot be concluded as a best method.
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