Decision tree model

About: Decision tree model is a research topic. Over the lifetime, 2256 publications have been published within this topic receiving 38142 citations.

A Trade-Off between Sample Complexity and Computational Complexity in Learning Boolean Networks from Time-Series Data

Abstract: A key problem in molecular biology is to infer regulatory relationships between genes from expression data. This paper studies a simplified model of such inference problems in which one or more Boolean variables, modeling, for example, the expression levels of genes, each depend deterministically on a small but unknown subset of a large number of Boolean input variables. Our model assumes that the expression data comprises a time series, in which successive samples may be correlated. We provide bounds on the expected amount of data needed to infer the correct relationships between output and input variables. These bounds improve and generalize previous results for Boolean network inference and continuous-time switching network inference. Although the computational problem is intractable in general, we describe a fixed-parameter tractable algorithm that is guaranteed to provide at least a partial solution to the problem. Most interestingly, both the sample complexity and computational complexity of the problem depend on the strength of correlations between successive samples in the time series but in opposing ways. Uncorrelated samples minimize the total number of samples needed while maximizing computational complexity; a strong correlation between successive samples has the opposite effect. This observation has implications for the design of experiments for measuring gene expression.

Approximations par arbre d'une distance partielle

Abstract: In tree clustering, we try to approximate a given dissimilarity matrice by a tree distance. In some cases, especially when comparing biological sequences, some dissimilarity values cannot be evaluated and we get some partial dissimilarity with undefined values. In that case one can develop a sequential method to reconstruct a valued tree or evaluate the missing values using a tree model. This paper introduces two methods of this kind and compare them simulating noisy partial tree dissimilarities.

Learning contour-fragment-based shape model with And-Or tree representation

Abstract: This paper proposes a simple yet effective method to learn the hierarchical object shape model consisting of local contour fragments, which represents a category of shapes in the form of an And-Or tree. This model extends the traditional hierarchical tree structures by introducing the “switch” variables (i.e. the or-nodes) that explicitly specify production rules to capture shape variations. We thus define the model with three layers: the leaf-nodes for detecting local contour fragments, the or-nodes specifying selection of leaf-nodes, and the root-node encoding the holistic distortion. In the training stage, for optimization of the And-Or tree learning, we extend the concave-convex procedure (CCCP) by embedding the structural clustering during the iterative learning steps. The inference of shape detection is consistent with the model optimization, which integrates the local testings via the leaf-nodes and or-nodes with the global verification via the root-node. The advantages of our approach are validated on the challenging shape databases (i.e., ETHZ and INRIA Horse) and summarized as follows. (1) The proposed method is able to accurately localize shape contours against unreliable edge detection and edge tracing. (2) The And-Or tree model enables us to well capture the intraclass variance.