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The H358 adenocarcinoma cell line harbours a K-Ras mutant and no EGFR mutations, yet our predictor and data of others [ 13] identify this cell line as sensitive to EGFR inhibition.
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PLS was used for the regression modeling because it overcomes the problems of intercorrelated predictor variables and data matrices where the number of variables exceeds the number of samples (Kettaneh-Wold 1992; Kvalheim 1989).
For the analysis of microarray datasets pertaining to these two neurodegenerative disorders, we matched the brain region of reference data (used to build the predictor) and target data (control and patient gene expression profiles) (Figure 1).
Secondly, predictor and outcome data were aggregated to existing administrative health areas.
Predictor and outcome data were aggregated for analysis using two methods.
FRAGFOLD-IDP software including the consensus predictor, and example data is available for download from https://github.com/psipred/fragfold_idp. Since Spearman's rank correlation (RS) is used as the disorder match metric used for assessment in this work, the order of fluctuations along the backbone is important, but not their absolute values.
However the main predictor and outcome data were both collected when the children were aged 13 14 years and evidence suggests IQ is relatively stable across childhood [34], and that most childhood eye defects are evident by age 7 [35].
In step 1 all the predictor and epidemiological data were converted into this spatiotemporal scale.
Predictions for each patient were made based on their raw predictor vector using the raw predictor and response data for the remaining patients ("leave-one-out" method).
Availability and Implementation: The Matlab code for our SemiSVR predictor and all data used here are available at http://baderlab.org/Data/PDZAffinity.
Using the 0.15 quantile as the predictor and the data available as of December 31 , 1996 we were able to predict the median survival of four cohorts (933, 934, 941, and 942) to be 34, 34, 31, and 29 months.
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