3,768 research outputs found
Learning Discriminative Bayesian Networks from High-dimensional Continuous Neuroimaging Data
Due to its causal semantics, Bayesian networks (BN) have been widely employed
to discover the underlying data relationship in exploratory studies, such as
brain research. Despite its success in modeling the probability distribution of
variables, BN is naturally a generative model, which is not necessarily
discriminative. This may cause the ignorance of subtle but critical network
changes that are of investigation values across populations. In this paper, we
propose to improve the discriminative power of BN models for continuous
variables from two different perspectives. This brings two general
discriminative learning frameworks for Gaussian Bayesian networks (GBN). In the
first framework, we employ Fisher kernel to bridge the generative models of GBN
and the discriminative classifiers of SVMs, and convert the GBN parameter
learning to Fisher kernel learning via minimizing a generalization error bound
of SVMs. In the second framework, we employ the max-margin criterion and build
it directly upon GBN models to explicitly optimize the classification
performance of the GBNs. The advantages and disadvantages of the two frameworks
are discussed and experimentally compared. Both of them demonstrate strong
power in learning discriminative parameters of GBNs for neuroimaging based
brain network analysis, as well as maintaining reasonable representation
capacity. The contributions of this paper also include a new Directed Acyclic
Graph (DAG) constraint with theoretical guarantee to ensure the graph validity
of GBN.Comment: 16 pages and 5 figures for the article (excluding appendix
Causal Reasoning with Ancestral Graphs
Causal reasoning is primarily concerned with what would happen to a system under external interventions. In particular, we are often interested in predicting the probability distribution of some random variables that would result if some other variables were forced to take certain values. One prominent approach to tackling this problem is based on causal Bayesian networks, using directed acyclic graphs as causal diagrams to relate post-intervention probabilities to pre-intervention probabilities that are estimable from observational data. However, such causal diagrams are seldom fully testable given observational data. In consequence, many causal discovery algorithms based on data-mining can only output an equivalence class of causal diagrams (rather than a single one). This paper is concerned with causal reasoning given an equivalence class of causal diagrams, represented by a (partial) ancestral graph. We present two main results. The first result extends Pearl (1995)'s celebrated do-calculus to the context of ancestral graphs. In the second result, we focus on a key component of Pearl's calculus---the property of invariance under interventions, and give stronger graphical conditions for this property than those implied by the first result. The second result also improves the earlier, similar results due to Spirtes et al. (1993)
A Survey on Causal Discovery: Theory and Practice
Understanding the laws that govern a phenomenon is the core of scientific
progress. This is especially true when the goal is to model the interplay
between different aspects in a causal fashion. Indeed, causal inference itself
is specifically designed to quantify the underlying relationships that connect
a cause to its effect. Causal discovery is a branch of the broader field of
causality in which causal graphs is recovered from data (whenever possible),
enabling the identification and estimation of causal effects. In this paper, we
explore recent advancements in a unified manner, provide a consistent overview
of existing algorithms developed under different settings, report useful tools
and data, present real-world applications to understand why and how these
methods can be fruitfully exploited
CBR and MBR techniques: review for an application in the emergencies domain
The purpose of this document is to provide an in-depth analysis of current reasoning engine practice and the integration strategies of Case Based Reasoning and Model Based Reasoning that will be used in the design and development of the RIMSAT system.
RIMSAT (Remote Intelligent Management Support and Training) is a European Commission funded project designed to:
a.. Provide an innovative, 'intelligent', knowledge based solution aimed at improving the quality of critical decisions
b.. Enhance the competencies and responsiveness of individuals and organisations involved in highly complex, safety critical incidents - irrespective of their location.
In other words, RIMSAT aims to design and implement a decision support system that using Case Base Reasoning as well as Model Base Reasoning technology is applied in the management of emergency situations.
This document is part of a deliverable for RIMSAT project, and although it has been done in close contact with the requirements of the project, it provides an overview wide enough for providing a state of the art in integration strategies between CBR and MBR technologies.Postprint (published version
A genetic algorithm-Bayesian network approach for the analysis of metabolomics and spectroscopic data: application to the rapid detection of Bacillus spores and identification of Bacillus species
Background
The rapid identification of Bacillus spores and bacterial identification are paramount because of their implications in food poisoning, pathogenesis and their use as potential biowarfare agents. Many automated analytical techniques such as Curie-point pyrolysis mass spectrometry (Py-MS) have been used to identify bacterial spores giving use to large amounts of analytical data. This high number of features makes interpretation of the data extremely difficult We analysed Py-MS data from 36 different strains of aerobic endospore-forming bacteria encompassing seven different species. These bacteria were grown axenically on nutrient agar and vegetative biomass and spores were analyzed by Curie-point Py-MS.
Results
We develop a novel genetic algorithm-Bayesian network algorithm that accurately identifies sand selects a small subset of key relevant mass spectra (biomarkers) to be further analysed. Once identified, this subset of relevant biomarkers was then used to identify Bacillus spores successfully and to identify Bacillus species via a Bayesian network model specifically built for this reduced set of features.
Conclusions
This final compact Bayesian network classification model is parsimonious, computationally fast to run and its graphical visualization allows easy interpretation of the probabilistic relationships among selected biomarkers. In addition, we compare the features selected by the genetic algorithm-Bayesian network approach with the features selected by partial least squares-discriminant analysis (PLS-DA). The classification accuracy results show that the set of features selected by the GA-BN is far superior to PLS-DA
Tensor Analysis and Fusion of Multimodal Brain Images
Current high-throughput data acquisition technologies probe dynamical systems
with different imaging modalities, generating massive data sets at different
spatial and temporal resolutions posing challenging problems in multimodal data
fusion. A case in point is the attempt to parse out the brain structures and
networks that underpin human cognitive processes by analysis of different
neuroimaging modalities (functional MRI, EEG, NIRS etc.). We emphasize that the
multimodal, multi-scale nature of neuroimaging data is well reflected by a
multi-way (tensor) structure where the underlying processes can be summarized
by a relatively small number of components or "atoms". We introduce
Markov-Penrose diagrams - an integration of Bayesian DAG and tensor network
notation in order to analyze these models. These diagrams not only clarify
matrix and tensor EEG and fMRI time/frequency analysis and inverse problems,
but also help understand multimodal fusion via Multiway Partial Least Squares
and Coupled Matrix-Tensor Factorization. We show here, for the first time, that
Granger causal analysis of brain networks is a tensor regression problem, thus
allowing the atomic decomposition of brain networks. Analysis of EEG and fMRI
recordings shows the potential of the methods and suggests their use in other
scientific domains.Comment: 23 pages, 15 figures, submitted to Proceedings of the IEE
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