Jason H. Moore

Affiliations:
  • University of Pennsylvania, Computational Genetics Laboratory, Philadelphia, PA, USA (since 2015)
  • Dartmouth College, Hanover, NH, USA (2004-2015)
  • Vanderbilt University, Nashville, TN, USA (1999-2004)
  • University of Michigan, Ann Arbor, MI, USA (PhD 1999)


According to our database1, Jason H. Moore authored at least 327 papers between 2000 and 2021.

Collaborative distances:

Timeline

Legend:

Book 
In proceedings 
Article 
PhD thesis 
Other 

Links

Online presence:

On csauthors.net:

Bibliography

2021
REGENS: an open source Python package for simulating realistic autosomal genotypes.
J. Open Source Softw., 2021

Use of electronic health records to support a public health response to the COVID-19 pandemic in the United States: a perspective from 15 academic medical centers.
J. Am. Medical Informatics Assoc., 2021

Validation of an internationally derived patient severity phenotype to support COVID-19 analytics from electronic health record data.
J. Am. Medical Informatics Assoc., 2021

Symbolic-regression boosting.
Genet. Program. Evolvable Mach., 2021

TPOT-NN: augmenting tree-based automated machine learning with neural network estimators.
Genet. Program. Evolvable Mach., 2021

Contemporary Symbolic Regression Methods and their Relative Performance.
CoRR, 2021

Benchmarking AutoML Frameworks for Disease Prediction Using Medical Claims.
CoRR, 2021

Generative and reproducible benchmarks for comprehensive evaluation of machine learning classifiers.
CoRR, 2021

treeheatr: an R package for interpretable decision tree visualizations.
Bioinform., 2021

Evaluating recommender systems for AI-driven biomedical informatics.
Bioinform., 2021

A comparison of methods for interpreting random forest models of genetic association in the presence of non-additive interactions.
BioData Min., 2021

Ten important roles for academic leaders to promote equity, diversity, and inclusion in data science.
BioData Min., 2021

Empowering the data science scientist.
BioData Min., 2021

Translational Bioinformatics: Integrating Electronic Health Record and Omics Data.
Proceedings of the Biocomputing 2021: Proceedings of the Pacific Symposium, 2021

Raising the stakeholders: Improving patient outcomes through interprofessional collaborations in AI for healthcare.
Proceedings of the Biocomputing 2021: Proceedings of the Pacific Symposium, 2021

Socio-cognitive Evolution Strategies.
Proceedings of the Computational Science - ICCS 2021, 2021

Towards effective GP multi-class classification based on dynamic targets.
Proceedings of the GECCO '21: Genetic and Evolutionary Computation Conference, 2021

EBIC.JL: an efficient implementation of evolutionary biclustering algorithm in Julia.
Proceedings of the GECCO '21: Genetic and Evolutionary Computation Conference, 2021

Rapid prototyping of evolution-driven biclustering methods in Julia.
Proceedings of the GECCO '21: Genetic and Evolutionary Computation Conference, 2021

2020
Gamorithm.
IEEE Trans. Games, 2020

A maximum likelihood approach to electronic health record phenotyping using positive and unlabeled patients.
J. Am. Medical Informatics Assoc., 2020

An augmented estimation procedure for EHR-based association studies accounting for differential misclassification.
J. Am. Medical Informatics Assoc., 2020

Learning from local to global: An efficient distributed algorithm for modeling time-to-event data.
J. Am. Medical Informatics Assoc., 2020

Learning from electronic health records across multiple sites: A communication-efficient and privacy-preserving distributed algorithm.
J. Am. Medical Informatics Assoc., 2020

Genetic programming theory and practice: a fifteen-year trajectory.
Genet. Program. Evolvable Mach., 2020

Learning feature spaces for regression with genetic programming.
Genet. Program. Evolvable Mach., 2020

PMLB v1.0: an open source dataset collection for benchmarking machine learning methods.
CoRR, 2020

A Rigorous Machine Learning Analysis Pipeline for Biomedical Binary Classification: Application in Pancreatic Cancer Nested Case-control Studies with Implications for Bias Assessments.
CoRR, 2020

Benchmarking in Optimization: Best Practice and Open Issues.
CoRR, 2020

Is deep learning necessary for simple classification tasks?
CoRR, 2020

Embedding covariate adjustments in tree-based automated machine learning for biomedical big data analyses.
BMC Bioinform., 2020

Regional imaging genetic enrichment analysis.
Bioinform., 2020

Model selection for metabolomics: predicting diagnosis of coronary artery disease using automated machine learning.
Bioinform., 2020

Scaling tree-based automated machine learning to biomedical big data with a feature set selector.
Bioinform., 2020

WellExplorer: an integrative resource linking hydraulic fracturing chemicals with hormonal pathways and geographic location.
Database J. Biol. Databases Curation, 2020

Conservation machine learning.
BioData Min., 2020

Ideas for how informaticians can get involved with COVID-19 research.
BioData Min., 2020

Ten important roles for academic leaders in data science.
BioData Min., 2020

How Computational Experiments Can Improve Our Understanding of the Genetic Architecture of Common Human Diseases.
Artif. Life, 2020

Robust-ODAL: Learning from Heterogeneous Health Systems Without Sharing Patient-LevelData.
Proceedings of the Pacific Symposium on Biocomputing 2020, 2020

Translational Bioinformatics: Biobanks in the Precision Medicine Era.
Proceedings of the Pacific Symposium on Biocomputing 2020, 2020

Image Feature Learning with Genetic Programming.
Proceedings of the Parallel Problem Solving from Nature - PPSN XVI, 2020

Image feature learning with a genetic programming autoencoder.
Proceedings of the GECCO '20: Genetic and Evolutionary Computation Conference, 2020

SGP-DT: towards effective symbolic regression with a semantic GP approach based on dynamic targets.
Proceedings of the GECCO '20: Genetic and Evolutionary Computation Conference, 2020

Large scale biomedical data analysis with tree-based automated machine learning.
Proceedings of the GECCO '20: Genetic and Evolutionary Computation Conference, 2020

Genetic programming approaches to learning fair classifiers.
Proceedings of the GECCO '20: Genetic and Evolutionary Computation Conference, 2020

Coevolving Artistic Images Using OMNIREP.
Proceedings of the Artificial Intelligence in Music, Sound, Art and Design, 2020

SGP-DT: Semantic Genetic Programming Based on Dynamic Targets.
Proceedings of the Genetic Programming - 23rd European Conference, 2020

Benchmarking Manifold Learning Methods on a Large Collection of Datasets.
Proceedings of the Genetic Programming - 23rd European Conference, 2020

Extracting Behavioral Determinants of Health from Electronic Health Records: Classifying Yoga Mentions in the Clinic.
Proceedings of the 13th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2020), 2020

Evaluation of Phenotyping Errors on Polygenic Risk Score Predictions.
Proceedings of the 13th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2020), 2020

Expanding Polygenic Risk Scores to Include Automatic Genotype Encodings and Gene-gene Interactions.
Proceedings of the 13th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2020), 2020

Explainable Artificial Intelligence (XAI): Current Approaches and Paths to the Future.
Proceedings of the AMIA 2020, 2020

Harnessing Electronic Health Records to Study Emerging Environmental Disasters: A Proof of Concept with PFAS.
Proceedings of the AMIA 2020, 2020

2019
Gene-Gene Interactions: An Essential Component to Modeling Complexity for Precision Medicine.
Proceedings of the Encyclopedia of Bioinformatics and Computational Biology - Volume 2, 2019

Multidimensional genetic programming for multiclass classification.
Swarm Evol. Comput., 2019

Comparing drug safety of hepatitis C therapies using post-market data.
BMC Medical Informatics Decis. Mak., 2019

OMNIREP: originating meaning by coevolving encodings and representations.
Memetic Comput., 2019

A regression framework to uncover pleiotropy in large-scale electronic health record data.
J. Am. Medical Informatics Assoc., 2019

Integration of genetic and clinical information to improve imputation of data missing from electronic health records.
J. Am. Medical Informatics Assoc., 2019

Automated discovery of test statistics using genetic programming.
Genet. Program. Evolvable Mach., 2019

Artificial Intelligence Based Approaches to Identify Molecular Determinants of Exceptional Health and Life Span-An Interdisciplinary Workshop at the National Institute on Aging.
Frontiers Artif. Intell., 2019

A Probabilistic and Multi-Objective Analysis of Lexicase Selection and ε-Lexicase Selection.
Evol. Comput., 2019

Evaluating recommender systems for AI-driven data science.
CoRR, 2019

EBIC: an open source software for high-dimensional and big data analyses.
Bioinform., 2019

STatistical Inference Relief (STIR) feature selection.
Bioinform., 2019

Correction to: Investigating the parameter space of evolutionary algorithms.
BioData Min., 2019

Exploration of a diversity of computational and statistical measures of association for genome-wide genetic studies.
BioData Min., 2019

Translational informatics of population Health: How large biomolecular and clinical datasets unite.
Proceedings of the Biocomputing 2019: Proceedings of the Pacific Symposium, 2019

ODAL: A one-shot distributed algorithm to perform logistic regressions on electronic health records data from multiple clinical sites.
Proceedings of the Biocomputing 2019: Proceedings of the Pacific Symposium, 2019

Reading between the genes: interpreting non-coding DNA in high-throughput.
Proceedings of the Biocomputing 2019: Proceedings of the Pacific Symposium, 2019

Using Machine Learning on Home Health Care Assessments to Predict Fall Risk.
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019

Learning concise representations for regression by evolving networks of trees.
Proceedings of the 7th International Conference on Learning Representations, 2019

New Pathways in Coevolutionary Computation.
Proceedings of the Genetic Programming Theory and Practice XVII [GPTP 2019, 2019

Mining a massive RNA-seq dataset with biclustering: are evolutionary approaches ready for big data?
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2019

Strategies for improving performance of evolutionary biclustering algorithm EBIC.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2019

EBIC: a scalable biclustering method for large scale data analysis.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2019

Discovering test statistics using genetic programming.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2019

Semantic variation operators for multidimensional genetic programming.
Proceedings of the Genetic and Evolutionary Computation Conference, 2019

Solution and Fitness Evolution (SAFE): Coevolving Solutions and Their Objective Functions.
Proceedings of the Genetic Programming - 22nd European Conference, 2019

Solution and Fitness Evolution (SAFE): A Study of Multiobjective Problems.
Proceedings of the IEEE Congress on Evolutionary Computation, 2019

Mining Regional Imaging Genetic Associations via Voxel-wise Enrichment Analysis.
Proceedings of the 2019 IEEE EMBS International Conference on Biomedical & Health Informatics, 2019

Interpretation of machine learning predictions for patient outcomes in electronic health records.
Proceedings of the AMIA 2019, 2019

TPOT: A Tree-Based Pipeline Optimization Tool for Automating Machine Learning.
Proceedings of the Automated Machine Learning - Methods, Systems, Challenges, 2019

2018
Eleven quick tips for architecting biomedical informatics workflows with cloud computing.
PLoS Comput. Biol., 2018

GPU Accelerated Browser for Neuroimaging Genomics.
Neuroinformatics, 2018

Benchmarking relief-based feature selection methods for bioinformatics data mining.
J. Biomed. Informatics, 2018

Relief-based feature selection: Introduction and review.
J. Biomed. Informatics, 2018

Medication class enrichment analysis: a novel algorithm to analyze multiple pharmacologic exposures simultaneously using electronic health record data.
J. Am. Medical Informatics Assoc., 2018

PIE: A prior knowledge guided integrated likelihood estimation method for bias reduction in association studies using electronic health records data.
J. Am. Medical Informatics Assoc., 2018

EBIC: an open source software for high-dimensional and big data biclustering analyses.
CoRR, 2018

Stochastic optimization approaches to learning concise representations.
CoRR, 2018

EBIC: an artificial intelligence-based parallel biclustering algorithm for pattern discovery.
CoRR, 2018

EBIC: an evolutionary-based parallel biclustering algorithm for pattern discovery.
Bioinform., 2018

runibic: a Bioconductor package for parallel row-based biclustering of gene expression data.
Bioinform., 2018

Collective feature selection to identify crucial epistatic variants.
BioData Min., 2018

To know the objective is not (necessarily) to know the objective function.
BioData Min., 2018

Investigating the parameter space of evolutionary algorithms.
BioData Min., 2018

Improving machine learning reproducibility in genetic association studies with proportional instance cross validation (PICV).
BioData Min., 2018

Retrieving Impressions from Semantic Memory Modeled with Associative Pulsing Neural Networks.
Proceedings of the IEEE Symposium Series on Computational Intelligence, 2018

Considerations for automated machine learning in clinical metabolic profiling: Altered homocysteine plasma concentration associated with metformin exposure.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

Data-driven advice for applying machine learning to bioinformatics problems.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

A heuristic method for simulating open-data of arbitrary complexity that can be used to compare and evaluate machine learning methods.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

Leveraging putative enhancer-promoter interactions to investigate two-way epistasis in Type 2 Diabetes GWAS.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

Session Introduction.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

Mapping patient trajectories using longitudinal extraction and deep learning in the MIMIC-III Critical Care Database.
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

Attribute tracking: strategies towards improved detection and characterization of complex associations.
Proceedings of the Genetic and Evolutionary Computation Conference, 2018

Evolutionary computation: an investigation of parameter space.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2018

EBIC: a next-generation evolutionary-based parallel biclustering method.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2018

Where are we now?: a large benchmark study of recent symbolic regression methods.
Proceedings of the Genetic and Evolutionary Computation Conference, 2018

A multidimensional genetic programming approach for identifying epsistatic gene interactions.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2018

An analysis of ϵ-lexicase selection for large-scale many-objective optimization.
Proceedings of the Genetic and Evolutionary Computation Conference Companion, 2018

Comparing adverse effects of Hepatitis C drugs using FAERS data.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Grammatical Evolution Strategies for Bioinformatics and Systems Genomics.
Proceedings of the Handbook of Grammatical Evolution, 2018

2017
Benchmarking Relief-Based Feature Selection Methods.
CoRR, 2017

$ε$-Lexicase selection: a probabilistic and multi-objective analysis of lexicase selection in continuous domains.
CoRR, 2017

From MEGATON to RASCAL: Surfing the Parameter Space of Evolutionary Algorithms.
CoRR, 2017

A System for Accessible Artificial Intelligence.
CoRR, 2017

Two-dimensional enrichment analysis for mining high-level imaging genetic associations.
Brain Informatics, 2017

Tissue-specific network-based genome wide study of amygdala imaging phenotypes to identify functional interaction modules.
Bioinform., 2017

Gene Set Enrichment Analyses: lessons learned from the heart failure phenotype.
BioData Min., 2017

Evolutionary computation: the next major transition of artificial intelligence?
BioData Min., 2017

Artificial intelligence: more human with human.
BioData Min., 2017

PMLB: a large benchmark suite for machine learning evaluation and comparison.
BioData Min., 2017

Grid-based stochastic search for hierarchical gene-gene interactions in population-based genetic studies of common human diseases.
BioData Min., 2017

Discovery and replication of SNP-SNP interactions for quantitative lipid traits in over 60,000 individuals.
BioData Min., 2017

Methods for enhancing the reproducibility of biomedical research findings using electronic health records.
BioData Min., 2017

Multi-class computational evolution: development, benchmark evaluation and application to RNA-Seq biomarker discovery.
BioData Min., 2017

Variant Set Enrichment: an R package to identify disease-associated functional genomic regions.
BioData Min., 2017

No-Boundary Thinking in Bioinformatics.
Proceedings of the Biocomputing 2017: Proceedings of the Pacific Symposium, 2017

The Training of Next Generation Data Scientists in Biomedicine.
Proceedings of the Biocomputing 2017: Proceedings of the Pacific Symposium, 2017

Missing Data Imputation in the Electronic Health Record Using Deeply Learned Autoencoders.
Proceedings of the Biocomputing 2017: Proceedings of the Pacific Symposium, 2017

Comparing Different Adverse Effects Among Multiple Drugs Using FAERS Data.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

Network-based genome wide study of hippocampal imaging phenotype in Alzheimer's Disease to identify functional interaction modules.
Proceedings of the 2017 IEEE International Conference on Acoustics, 2017

Problem Driven Machine Learning by Co-evolving Genetic Programming Trees and Rules in a Learning Classifier System.
Proceedings of the Genetic Programming Theory and Practice XV, 2017

A System for Accessible Artificial Intelligence.
Proceedings of the Genetic Programming Theory and Practice XV, 2017

Toward the automated analysis of complex diseases in genome-wide association studies using genetic programming.
Proceedings of the Genetic and Evolutionary Computation Conference, 2017

Ensemble representation learning: an analysis of fitness and survival for wrapper-based genetic programming methods.
Proceedings of the Genetic and Evolutionary Computation Conference, 2017

Improving the Reproducibility of Genetic Association Results Using Genotype Resampling Methods.
Proceedings of the Applications of Evolutionary Computation - 20th European Conference, 2017

EVE: Cloud-Based Annotation of Human Genetic Variants.
Proceedings of the Applications of Evolutionary Computation - 20th European Conference, 2017

Genetic Programming Representations for Multi-dimensional Feature Learning in Biomedical Classification.
Proceedings of the Applications of Evolutionary Computation - 20th European Conference, 2017

A General Feature Engineering Wrapper for Machine Learning Using \epsilon -Lexicase Survival.
Proceedings of the Genetic Programming - 20th European Conference, 2017

2016
Exploring the coevolution of predator and prey morphology and behavior.
CoRR, 2016

Structured sparse CCA for brain imaging genetics via graph OSCAR.
BMC Syst. Biol., 2016

Structured sparse canonical correlation analysis for brain imaging genetics: an improved GraphNet method.
Bioinform., 2016

The golden era of biomedical informatics has begun.
BioData Min., 2016

A call for biological data mining approaches in epidemiology.
BioData Min., 2016

Detecting gene-gene interactions using a permutation-based random forest method.
BioData Min., 2016

Evolutionary triangulation: informing genetic association studies with evolutionary evidence.
BioData Min., 2016

Erratum to: Evolving hard problems: generating human genetics datasets with a complex etiology.
BioData Min., 2016

Considerations for higher efficiency and productivity in research activities.
BioData Min., 2016

The tip of the iceberg: challenges of accessing hospital electronic health record data for biological data mining.
BioData Min., 2016

Complex systems analysis of bladder cancer susceptibility reveals a role for decarboxylase activity in two genome-wide association studies.
BioData Min., 2016

Adapting bioinformatics curricula for big data.
Briefings Bioinform., 2016

An Integrated Network Approach to Identifying Biological Pathways and Environmental Exposure Interactions in Complex Diseases.
Proceedings of the Biocomputing 2016: Proceedings of the Pacific Symposium, 2016

Pareto Inspired Multi-objective Rule Fitness for Noise-Adaptive Rule-Based Machine Learning.
Proceedings of the Parallel Problem Solving from Nature - PPSN XIV, 2016

Evolution of Active Categorical Image Classification via Saccadic Eye Movement.
Proceedings of the Parallel Problem Solving from Nature - PPSN XIV, 2016

TPOT: A Tree-based Pipeline Optimization Tool for Automating Machine Learning.
Proceedings of the 2016 Workshop on Automatic Machine Learning, 2016

Identifying and Harnessing the Building Blocks of Machine Learning Pipelines for Sensible Initialization of a Data Science Automation Tool.
Proceedings of the Genetic Programming Theory and Practice XIV, 2016

Pareto Inspired Multi-objective Rule Fitness for Adaptive Rule-based Machine Learning.
Proceedings of the Genetic and Evolutionary Computation Conference, 2016

Evaluation of a Tree-based Pipeline Optimization Tool for Automating Data Science.
Proceedings of the 2016 on Genetic and Evolutionary Computation Conference, Denver, CO, USA, July 20, 2016

Automating Biomedical Data Science Through Tree-Based Pipeline Optimization.
Proceedings of the Applications of Evolutionary Computation - 19th European Conference, 2016

Bicliques in Graphs with Correlated Edges: From Artificial to Biological Networks.
Proceedings of the Applications of Evolutionary Computation - 19th European Conference, 2016

2015
An Independent Filter for Gene Set Testing Based on Spectral Enrichment.
IEEE ACM Trans. Comput. Biol. Bioinform., 2015

ExSTraCS 2.0: description and evaluation of a scalable learning classifier system.
Evol. Intell., 2015

Delay-tolerant networks and network coding: Comparative studies on simulated and real-device experiments.
Comput. Networks, 2015

Spectral gene set enrichment (SGSE).
BMC Bioinform., 2015

Lumping versus splitting: the need for biological data mining in precision medicine.
BioData Min., 2015

The role of visualization and 3-D printing in biological data mining.
BioData Min., 2015

Prediction of relevant biomedical documents: a human microbiome case study.
BioData Min., 2015

gammaMAXT: a fast multiple-testing correction algorithm.
BioData Min., 2015

Big data - a 21st century science Maginot Line? No-boundary thinking: shifting from the big data paradigm.
BioData Min., 2015

Functional dyadicity and heterophilicity of gene-gene interactions in statistical epistasis networks.
BioData Min., 2015

Testing multiple hypotheses through IMP weighted FDR based on a genetic functional network with application to a new zebrafish transcriptome study.
BioData Min., 2015

Principal component gene set enrichment (PCGSE).
BioData Min., 2015

Identifying gene-gene interactions that are highly associated with Body Mass Index using Quantitative Multifactor Dimensionality Reduction (QMDR).
BioData Min., 2015

Characterizing gene-gene interactions in a statistical epistasis network of twelve candidate genes for obesity.
BioData Min., 2015

Training the Next Generation of Quantitative Biologists in the Era of Big Data.
Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

Genome-Wide Genetic Interaction Analysis of Glaucoma Using Expert Knowledge Derived from Human Phenotype Networks.
Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

Session Introduction.
Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

A Bipartite Network Approach to Inferring Interactions Between Environmental Exposures and Human Diseases.
Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

Continuous Endpoint Data Mining with ExSTraCS: A Supervised Learning Classifier System.
Proceedings of the Genetic and Evolutionary Computation Conference, 2015

Retooling Fitness for Noisy Problems in a Supervised Michigan-style Learning Classifier System.
Proceedings of the Genetic and Evolutionary Computation Conference, 2015

Critical properties of cellular automata with evolving network topologies.
Proceedings of the IEEE Congress on Evolutionary Computation, 2015

GN-SCCA: GraphNet Based Sparse Canonical Correlation Analysis for Brain Imaging Genetics.
Proceedings of the Brain Informatics and Health - 8th International Conference, 2015

2014
Phenotypic Robustness and the Assortativity Signature of Human Transcription Factor Networks.
PLoS Comput. Biol., 2014

Influence networks based on coexpression improve drug target discovery for the development of novel cancer therapeutics.
BMC Syst. Biol., 2014

Transcriptome-guided amyloid imaging genetic analysis via a novel structured sparse learning algorithm.
Bioinform., 2014

Optimization of gene set annotations via entropy minimization over variable clusters (EMVC).
Bioinform., 2014

Computational genetics analysis of grey matter density in Alzheimer's disease.
BioData Min., 2014

A Classification and Characterization of Two-Locus, Pure, Strict, Epistatic Models for Simulation and Detection.
BioData Min., 2014

Combining functional genomics strategies identifies modular heterogeneity of breast cancer intrinsic subtypes.
BioData Min., 2014

O brave new world that has such machines in it.
BioData Min., 2014

First complex, then simple.
BioData Min., 2014

Innovation is often unnerving: the door into summer.
BioData Min., 2014

The genetic interacting landscape of 63 candidate genes in Major Depressive Disorder: an explorative study.
BioData Min., 2014

Functional genomics annotation of a statistical epistasis network associated with bladder cancer susceptibility.
BioData Min., 2014

Risk estimation using probability machines.
BioData Min., 2014

The multiscale backbone of the human phenotype network based on biological pathways.
BioData Min., 2014

Diverse convergent evidence in the genetic analysis of complex disease: coordinating omic, informatic, and experimental evidence to better identify and validate risk factors.
BioData Min., 2014

Robustness, Evolvability, and the Logic of Genetic Regulation.
Artif. Life, 2014

The Effects of Recombination on Phenotypic Exploration and Robustness in Evolution.
Artif. Life, 2014

Building the Next Generation of Quantitative Biologists.
Proceedings of the Biocomputing 2014: Proceedings of the Pacific Symposium, 2014

Using the Bipartite Human Phenotype Network to Reveal Pleiotropy and Epistasis Beyond the Gene.
Proceedings of the Biocomputing 2014: Proceedings of the Pacific Symposium, 2014

Applications of Bioinformatics to Non-Coding RNAs in the Era of Next-Generation Sequencing.
Proceedings of the Biocomputing 2014: Proceedings of the Pacific Symposium, 2014

An Extended Michigan-Style Learning Classifier System for Flexible Supervised Learning, Classification, and Data Mining.
Proceedings of the Parallel Problem Solving from Nature - PPSN XIII, 2014

Population Exploration on Genotype Networks in Genetic Programming.
Proceedings of the Parallel Problem Solving from Nature - PPSN XIII, 2014

A Novel Structure-Aware Sparse Learning Algorithm for Brain Imaging Genetics.
Proceedings of the Medical Image Computing and Computer-Assisted Intervention - MICCAI 2014, 2014

Joint identification of imaging and proteomics biomarkers of Alzheimer's disease using network-guided sparse learning.
Proceedings of the IEEE 11th International Symposium on Biomedical Imaging, 2014

Data synthesis and method evaluation for brain imaging genetics.
Proceedings of the IEEE 11th International Symposium on Biomedical Imaging, 2014

Message prioritization of epidemic forwarding in delay-tolerant networks.
Proceedings of the International Conference on Computing, Networking and Communications, 2014

Delay-tolerant networks with network coding: How well can we simulate real devices?
Proceedings of the IEEE International Conference on Communications, 2014

Identification of Novel Genetic Models of Glaucoma Using the "EMERGENT" Genetic Programming-Based Artificial Intelligence System.
Proceedings of the Genetic Programming Theory and Practice XII, 2014

Models of Gene Regulation: Integrating Modern Knowledge into the Random Boolean Network Framework.
Proceedings of the Evolution, Complexity and Artificial Life, 2014

2013
Complex and dynamic population structures: synthesis, open questions, and future directions.
Soft Comput., 2013

Research and applications: Role of genetic heterogeneity and epistasis in bladder cancer susceptibility and outcome: a learning classifier system approach.
J. Am. Medical Informatics Assoc., 2013

Research and applications: An information-gain approach to detecting three-way epistatic interactions in genetic association studies.
J. Am. Medical Informatics Assoc., 2013

A multi-core parallelization strategy for statistical significance testing in learning classifier systems.
Evol. Intell., 2013

Big Data analysis on autopilot?
BioData Min., 2013

The central role of biological data mining in connecting diverse disciplines.
BioData Min., 2013

The disconnect between classical biostatistics and the biological data mining community.
BioData Min., 2013

The limits of p-values for biological data mining.
BioData Min., 2013

No-boundary thinking in bioinformatics research.
BioData Min., 2013

Identification of SNPs associated with variola virus virulence.
BioData Min., 2013

Multifactor dimensionality reduction reveals a three-locus epistatic interaction associated with susceptibility to pulmonary tuberculosis.
BioData Min., 2013

Statistical Epistasis Networks Reduce the Computational Complexity of Searching Three-Locus Genetic Models.
Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

Network-Guided Sparse Learning for Predicting Cognitive Outcomes from MRI Measures.
Proceedings of the Multimodal Brain Image Analysis - Third International Workshop, 2013

Exploring Interestingness in a Computational Evolution System for the Genome-Wide Genetic Analysis of Alzheimer's Disease.
Proceedings of the Genetic Programming Theory and Practice XI [GPTP 2013, 2013

A simple multi-core parallelization strategy for learning classifier system evaluation.
Proceedings of the Genetic and Evolutionary Computation Conference, 2013

Coevolution of rules and topology in cellular automata.
Proceedings of the Genetic and Evolutionary Computation Conference, 2013

Bipartite networks to study the genotype-to-phenotype relationship in cellular automata models.
Proceedings of the Genetic and Evolutionary Computation Conference, 2013

Optimal Use of Biological Expert Knowledge from Literature Mining in Ant Colony Optimization for Analysis of Epistasis in Human Disease.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2013

Supervising Random Forest Using Attribute Interaction Networks.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2013

Multiple Threshold Spatially Uniform ReliefF for the Genetic Analysis of Complex Human Diseases.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2013

Cell-Based Metrics Improve the Detection of Gene-Gene Interactions Using Multifactor Dimensionality Reduction.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2013

Inferring Human Phenotype Networks from Genome-Wide Genetic Associations.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2013

Robustness and Evolvability of Recombination in Linear Genetic Programming.
Proceedings of the Genetic Programming - 16th European Conference, 2013

Rapid Rule Compaction Strategies for Global Knowledge Discovery in a Supervised Learning Classifier System.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

An alternative route to robustness: The relationship between assortativity, in-components, and characteristic path length in gene regulatory networks.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

The influence of assortativity on the robustness and evolvability of gene regulatory networks upon gene birth.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

Bladder cancer specific pathway interaction networks.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

Cellular Automata Coevolution of Update Functions and Topologies: A Tradeoff between Accuracy and Speed.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

Bipartite Networks Show the Genotype-to-Phenotype Relationship in Biological Systems Models: A Study of the Robustness, Evolvability, and Accessibility in Linear Cellular Automata.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

2012
Chapter 11: Genome-Wide Association Studies.
PLoS Comput. Biol., 2012

Evolutionary dynamics on multiple scales: a quantitative analysis of the interplay between genotype, phenotype, and fitness in linear genetic programming.
Genet. Program. Evolvable Mach., 2012

An Analysis Pipeline with Statistical and Visualization-Guided Knowledge Discovery for Michigan-Style Learning Classifier Systems.
IEEE Comput. Intell. Mag., 2012

GAMETES: a fast, direct algorithm for generating pure, strict, epistatic models with random architectures.
BioData Min., 2012

Predicting the difficulty of pure, strict, epistatic models: metrics for simulated model selection.
BioData Min., 2012

Gene ontology analysis of pairwise genetic associations in two genome-wide studies of sporadic ALS.
BioData Min., 2012

Measuring the microbiome: perspectives on advances in DNA-based techniques for exploring microbial life.
Briefings Bioinform., 2012

Session introduction.
Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012

Using Expert Knowledge to Guide Covering and Mutation in a Michigan Style Learning Classifier System to Detect Epistasis and Heterogeneity.
Proceedings of the Parallel Problem Solving from Nature - PPSN XII, 2012

Instance-linked attribute tracking and feedback for michigan-style supervised learning classifier systems.
Proceedings of the Genetic and Evolutionary Computation Conference, 2012

The Role of Mutations in Whole Genome Duplication.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2012

Artificial Immune Systems Perform Valuable Work When Detecting Epistasis in Human Genetic Datasets.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2012

Lévy-Flight Genetic Programming: Towards a New Mutation Paradigm.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2012

2011
Toward robust network based complex systems: from evolutionary cellular automata to biological models.
Intelligenza Artificiale, 2011

Characterizing Genetic Interactions in Human Disease Association Studies Using Statistical Epistasis Networks.
BMC Bioinform., 2011

Mining the diseasome.
BioData Min., 2011

Mining beyond the exome.
BioData Min., 2011

Data mining and the evolution of biological complexity.
BioData Min., 2011

The spatial dimension in biological data mining.
BioData Min., 2011

Evolving hard problems: Generating human genetics datasets with a complex etiology.
BioData Min., 2011

Human Microbiome Visualization Using 3d Technology.
Proceedings of the Biocomputing 2011: Proceedings of the Pacific Symposium, 2011

Session Introduction.
Proceedings of the Biocomputing 2011: Proceedings of the Pacific Symposium, 2011

Random artificial incorporation of noise in a learning classifier system environment.
Proceedings of the 13th Annual Genetic and Evolutionary Computation Conference, 2011

Validating a Threshold-Based Boolean Model of Regulatory Networks on a Biological Organism.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2011

Robustness, Evolvability, and Accessibility in Linear Genetic Programming.
Proceedings of the Genetic Programming - 14th European Conference, 2011

Robustness, evolvability, and accessibility in the signal-integration space of gene regulatory circuits.
Proceedings of the Advances in Artificial Life: 20th Anniversary Edition, 2011

The influence of whole genome duplication and subsequent diversification on environmental robustness and evolutionary innovation in gene regulatory networks.
Proceedings of the Advances in Artificial Life: 20th Anniversary Edition, 2011

Distinguishing the effects of epistasis and pleiotropy using a variant of the NK model.
Proceedings of the Advances in Artificial Life: 20th Anniversary Edition, 2011

Addressing the Challenges of Detecting Epistasis in Genome-Wide Association Studies of Common Human Diseases Using Biological Expert Knowledge.
Proceedings of the Handbook of Research on Computational and Systems Biology, 2011

2010
Whole genome association study of brain-wide imaging phenotypes for identifying quantitative trait loci in MCI and AD: A study of the ADNI cohort.
NeuroImage, 2010

Bioinformatics challenges for genome-wide association studies.
Bioinform., 2010

Multifactor dimensionality reduction for graphics processing units enables genome-wide testing of epistasis in sporadic ALS.
Bioinform., 2010

Enabling Personal Genomics with an Explicit Test of Epistasis.
Proceedings of the Biocomputing 2010: Proceedings of the Pacific Symposium, 2010

Employing Publically Available Biological Expert Knowledge from Protein-Protein Interaction Information.
Proceedings of the Pattern Recognition in Bioinformatics, 2010

The Application of Pittsburgh-Style Learning Classifier Systems to Address Genetic Heterogeneity and Epistasis in Association Studies.
Proceedings of the Parallel Problem Solving from Nature, 2010

The application of michigan-style learning classifiersystems to address genetic heterogeneity and epistasisin association studies.
Proceedings of the Genetic and Evolutionary Computation Conference, 2010

Fast genome-wide epistasis analysis using ant colony optimization for multifactor dimensionality reduction analysis on graphics processing units.
Proceedings of the Genetic and Evolutionary Computation Conference, 2010

Bioinformatics.
Proceedings of the Genetic and Evolutionary Computation Conference, 2010

Artificial Immune Systems for Epistasis Analysis in Human Genetics.
Proceedings of the Evolutionary Computation, 2010

Sexual Recombination in Self-Organizing Interaction Networks.
Proceedings of the Applications of Evolutionary Computation, 2010

A Model Free Method to Generate Human Genetics Datasets with Complex Gene-Disease Relationships.
Proceedings of the Evolutionary Computation, 2010

The Informative Extremes: Using Both Nearest and Farthest Individuals Can Improve Relief Algorithms in the Domain of Human Genetics.
Proceedings of the Evolutionary Computation, 2010

Solving Complex Problems in Human Genetics using Nature-Inspired Algorithms Requires Strategies which Exploit Domain-Specific Knowledge.
Proceedings of the Nature-Inspired Informatics for Intelligent Applications and Knowledge Discovery: Implications in Business, 2010

2009
Spatially Uniform ReliefF (SURF) for computationally-efficient filtering of gene-gene interactions.
BioData Min., 2009

Multifactor dimensionality reduction analysis identifies specific nucleotide patterns promoting genetic polymorphisms.
BioData Min., 2009

Environmental noise improves epistasis models of genetic data discovered using a computational evolution system.
Proceedings of the Genetic and Evolutionary Computation Conference, 2009

Optimal Use of Expert Knowledge in Ant Colony Optimization for the Analysis of Epistasis in Human Disease.
Proceedings of the Evolutionary Computation, 2009

An Open-Ended Computational Evolution Strategy for Evolving Parsimonious Solutions to Human Genetics Problems.
Proceedings of the Advances in Artificial Life. Darwin Meets von Neumann, 2009

An Analysis of New Expert Knowledge Scaling Methods for Biologically Inspired Computing.
Proceedings of the Advances in Artificial Life. Darwin Meets von Neumann, 2009

Development and evaluation of an open-ended computational evolution system for the creation of digital organisms with complex genetic architecture.
Proceedings of the IEEE Congress on Evolutionary Computation, 2009

Sensible initialization using expert knowledge for genome-wide analysis of epistasis using genetic programming.
Proceedings of the IEEE Congress on Evolutionary Computation, 2009

Nature-inspired algorithms for the genetic analysis of epistasis in common human diseases: Theoretical assessment of wrapper vs. filter approaches.
Proceedings of the IEEE Congress on Evolutionary Computation, 2009

2008
Filling the gap between biology and computer science.
BioData Min., 2008

Mask functions for the symbolic modeling of epistasis using genetic programming.
Proceedings of the Genetic and Evolutionary Computation Conference, 2008

Using expert knowledge in initialization for genome-wide analysis of epistasis using genetic programming.
Proceedings of the Genetic and Evolutionary Computation Conference, 2008

Development and Evaluation of an Open-Ended Computational Evolution System for the Genetic Analysis of Susceptibility to Common Human Diseases.
Proceedings of the Evolutionary Computation, 2008

Ant Colony Optimization for Genome-Wide Genetic Analysis.
Proceedings of the Ant Colony Optimization and Swarm Intelligence, 2008

2007
Genomic mining for complex disease traits with "random chemistry".
Genet. Program. Evolvable Mach., 2007

Evaporative cooling feature selection for genotypic data involving interactions.
Bioinform., 2007

Genetic programming neural networks: A powerful bioinformatics tool for human genetics.
Appl. Soft Comput., 2007

An Expert Knowledge-Guided Mutation Operator for Genome-Wide Genetic Analysis Using Genetic Programming.
Proceedings of the Pattern Recognition in Bioinformatics, 2007

Towards human-human-computer interaction for biologically-inspired problem-solving in human genetics.
Proceedings of the Genetic and Evolutionary Computation Conference, 2007

Tuning ReliefF for Genome-Wide Genetic Analysis.
Proceedings of the Evolutionary Computation, 2007

2006
Dissecting trait heterogeneity: a comparison of three clustering methods applied to genotypic data.
BMC Bioinform., 2006

Exploiting Expert Knowledge in Genetic Programming for Genome-Wide Genetic Analysis.
Proceedings of the Parallel Problem Solving from Nature, 2006

Feature Selection using a Random Forests Classifier for the Integrated Analysis of Multiple Data Types.
Proceedings of the 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2006

2005
Exploratory Visual Analysis of Pharmacogenomic Results.
Proceedings of the Biocomputing 2005, 2005

A statistical comparison of grammatical evolution strategies in the domain of human genetics.
Proceedings of the IEEE Congress on Evolutionary Computation, 2005

2004
Ideal discrimination of discrete clinical endpoints using multilocus genotypes.
Silico Biol., 2004

An application of conditional logistic regression and multifactor dimensionality reduction for detecting gene-gene Interactions on risk of myocardial infarction: The importance of model validation.
BMC Bioinform., 2004

Routine discovery of complex genetic models using genetic algorithms.
Appl. Soft Comput., 2004

Genetic Programming Neural Networks as a Bioinformatics Tool for Human Genetics.
Proceedings of the Genetic and Evolutionary Computation, 2004

Systems Biology Modeling in Human Genetics Using Petri Nets and Grammatical Evolution.
Proceedings of the Genetic and Evolutionary Computation, 2004

An Improved Grammatical Evolution Strategy for Hierarchical Petri Net Modeling of Complex Genetic Systems.
Proceedings of the Applications of Evolutionary Computing, 2004

2003
Optimizationof neural network architecture using genetic programming improvesdetection and modeling of gene-gene interactions in studies of humandiseases.
BMC Bioinform., 2003

Multifactor dimensionality reduction software for detecting gene-gene and gene-environment interactions.
Bioinform., 2003

Complex Function Sets Improve Symbolic Discriminant Analysis of Microarray Data.
Proceedings of the Genetic and Evolutionary Computation, 2003

Grammatical Evolution for the Discovery of Petri Net Models of Complex Genetic Systems.
Proceedings of the Genetic and Evolutionary Computation, 2003

Cross Validation Consistency for the Assessment of Genetic Programming Results in Microarray Studies.
Proceedings of the Applications of Evolutionary Computing, 2003

2002
A Cellular Automata Approach to Detecting Interactions Among Single-nucleotide Polymorphisms in Complex Multifactorial Diseases.
Proceedings of the 7th Pacific Symposium on Biocomputing, 2002

Cellular Automata and Genetic Algorithms for Parallel Problem Solving in Human Genetics.
Proceedings of the Parallel Problem Solving from Nature, 2002

Application Of Genetic Algorithms To The Discovery Of Complex Models For Simulation Studies In Human Genetics.
Proceedings of the GECCO 2002: Proceedings of the Genetic and Evolutionary Computation Conference, 2002

2001
Symbolic Discriminant Analysis for Mining Gene Expression Patterns.
Proceedings of the Machine Learning: EMCL 2001, 2001

2000
Detection of linear and nonlinear dependencies in time series using the method of surrogate data in S-PLUS.
Comput. Methods Programs Biomed., 2000


  Loading...