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Carl M. Kadie

Publications and source records attributed to Carl M. Kadie.

2 recordsLinked to original sources

Quantifying the Value of Constructive Induction, Knowledge, and Noise Filtering on Inductive Learning

Learning research, as one of its central goals, tries to measure, model, and understand how learning-problem properties affect average-case learning performance. For example, we would like to quantify the value of constructive induction, noise filtering, and background knowledge. This paper describes the effective dimension, a new learning measure that helps link problem properties to learning performance. Like the Vapnik-Chervonenkis (VC) dimension, the effective dimension is often in a simple linear relation with problem properties. Unlike the VC dimension, the effective dimension can be estimated empirically and makes average-case predictions. It is therefore more widely applicable to machine and human learning research. The measure is demonstrated on several learning systems including Backpropagation. Finally, the measure is used to precisely predict the benefit of using FRINGE, a feature construction system. The benefit is found to decrease as the complexity of the target concept increases.

cs.LG↗

A powerful and efficient set test for genetic markers that handles confounders

Approaches for testing sets of variants, such as a set of rare or common variants within a gene or pathway, for association with complex traits are important. In particular, set tests allow for aggregation of weak signal within a set, can capture interplay among variants, and reduce the burden of multiple hypothesis testing. Until now, these approaches did not address confounding by family relatedness and population structure, a problem that is becoming more important as larger data sets are used to increase power. Results: We introduce a new approach for set tests that handles confounders. Our model is based on the linear mixed model and uses two random effects-one to capture the set association signal and one to capture confounders. We also introduce a computational speedup for two-random-effects models that makes this approach feasible even for extremely large cohorts. Using this model with both the likelihood ratio test and score test, we find that the former yields more power while controlling type I error. Application of our approach to richly structured GAW14 data demonstrates that our method successfully corrects for population structure and family relatedness, while application of our method to a 15,000 individual Crohn's disease case-control cohort demonstrates that it additionally recovers genes not recoverable by univariate analysis. Availability: A Python-based library implementing our approach is available at http://mscompbio.codeplex.com

q-bio.GN↗