Approximately Optimal Search on a Higher-dimensional Sliding Puzzle. [ arxiv. ]
Meta-Posterior Consistency for the Bayesian Inference of Metastable System. [ arxiv. ]
On the Frequentist Coverage of Bayes Posteriors in Nonlinear Inverse Problems. [ arxiv. ]
Scalable Bayesian inference for the generalized linear mixed models. [ arxiv. ]
Pragmatist Intelligence: Where the Principle of Usefulness Can Take ANNs. [ arxiv. ]
Irreducibility of Markov Chains on simplicial complexes, the Spectrum of the Discrete Hodge Laplacian and Homology. [ arxiv. ]
Minimum Φ-distance estimators for finite mixing measures. [ arxiv. ]
A Statistical Analysis of Compositional Surveys. [ arxiv ]
Extended probabilities and their application to statistical inference. [ arxiv ]
A Large Deviation Approach to Posterior Consistency in Dynamical Systems. [ arxiv ]
Towards Explainable Convolutional Features for Music Audio Modeling. [ arxiv ]
Random Lie Brackets that Induce Torsion: A Model for Noisy Vector Fields. [ arxiv ]
Stanza: A Nonlinear State Space Model for Probabilistic Inference in Non-Stationary Time Series. [ arxiv ]
On the geometric properties of finite mixture models. [ arxiv ]
Scalable Modeling of Spatiotemporal Data using the Variational Autoencoder: an Application in Glaucoma. [ arxiv ]
Gaussian Process Mixtures for Estimating Heterogeneous Treatment Effects. [ arxiv ]
Statistical Considerations in the Design and Analysis of Longitudinal Microbiome Studies. [ bioRxiv ]
Learning Integral Representations of Gaussian Processes. [ arXiv | code ]
Classical Music Composition Using State Space Models. [ arXiv | website | code ]
Approximations of Markov Chains and Bayesian Inference. [ arXiv ]
Persistent Homology Transform for Modeling Shapes and Surfaces. [ arXiv ]
Towards Stratification Learning through Homology Inference. [ working paper ]
Multiscale factor models for molecular networks . [ working paper ]
Social and environmental predictors of gut microbiome age in wild baboons. [& book chapterv ]
Extended probabilities and their application to statistical inference. [ arxiv | book chapterv ]
A Sheaf-Theoretic Construction of Shape Space. Foundations of Computational Mathematics. [ arxiv | journal ]
Representing Fields without Correspondences: the Lifted Euler Characteristic Transform. Journal of Applied and Compuational Topology. Journal of Applied and Computational Topology. [ arxiv | journal ]
Asymptotics of Bayesian Uncertainty Estimation in Random Features Regression. NeurIPS Proceedings. [ arxiv | journal ]
Global Optimality of Elman-type RNN in the Mean-Field Regime. ICML Proceedings. [ arxiv. | journal ]
Universal gut microbial relationships in the gut microbiome of wild baboons. eLife. [ bioRxiv. | journal ]
Concentration inequalities and optimal number of layers for stochastic deep neural networks. IEEE Xplore. [ arxiv | journal ]
Identifying risk factors for blindness from glaucoma at first presentation to a tertiary clinic. American Journal of Ophthalmology. [ arxiv | journal ]
Generalized Bayes approach to inverse problems with model misspecification. Inverse Problems. [ arxiv | journal ]
Ergodic theorems for imprecise probability kinematics. International Journal of Approximate Reasoning. [ arxiv | journal ]
Multiple testing with persistent homology. Foundations of Data Science. Foundations of Data Science. [ arxiv | journal ]
Adaptive particle-based approximations of the Gibbs posterior for inverse problems. Communications in Optimization Theory. [ arxiv ]
The Bulk and the Extremes of Minimal Spanning Acycles and Persistence Diagrams of Random Complexes. Discrete Analysis. [ journal ]
The accuracy of absolute differential abundance analysis from relative count data. PLoS Computational Biology. [ bioRxiv ] |   journal ]
A Topological Data Analytic Approach for Discovering Biophysical Signatures in Protein Dynamics. PLoS Computational Biology. [ bioRxiv |   journal ]
Synchrony and idiosyncrasy in the gut microbiome of wild primates. Nature Ecology & Evolution. [ bioRxiv | journal ]
How Many Directions Determine a Shape and other Sufficiency Results for Two Topological Transforms. Transactions of the American Mathematical Society. [ arXiv ] | journal ]
Bayesian Multinomial Logistic Normal Models through Marginally Latent Matrix-T Processes. Journal of Machine Learning Research. [ arxiv | journal ]
Learning Subspaces of Different Dimension. Journal of Computational and Graphical Statistics. [ arxiv | journal | code ]
Gibbs posterior convergence and the thermodynamic formalism. Annals of Applied Probability. [ arxiv | journal ]
Morphological and genomic shifts in mole-rat ‘queens’ increase fecundity but reduce skeletal integrity. eLife. [ journal ]
Statistical Robustness of Markov Chain Monte Carlo Accelerators. Proceedings of the 26th ACM International Conference on Architectural Support for Programming Languages and Operating Systems. [ journal ]
Likelihood ratio statistics for gene set enrichment in Alzheimer's disease pathways. Alzheimer's & Dementia. [ journal ]
Measuring and Mitigating PCR Bias in Microbiome Data. PLoS Computational Biology. [ bioRxiv | journal ]
Subspace Clustering through Sub-Clusters. Journal of Machine Learning Reasearch. [ arxiv | journal ]
A Statistical Pipeline for Identifying Physical Features that Differentiate Classes of 3D Shapes. Annals of Applied Statistics. [ bioRxiv | journal]
Bayesian Non-Parametric Factor Analysis for Longitudinal Spatial Surfaces. Bayesian Analysis. [ arxiv | journal ]
The Geometry of Synchronization Problems and Learning Group Actions. Discrete and Computational Geometry. [ arxiv | journal | code ]
Naught all zeros in sequence count data are the same. Computational and Structural Biotechnology Journal. [ journal | bioRxiv ]
Estimating Rates of Progression and Predicting Future Visual Fields in Glaucoma Using a Deep Variational Autoencoder. Scientific Reports. [ journal | bioRxiv ]
Predicting Clinical Outcomes in Glioblastoma: An Application of Topological and Functional Data Analysis. Journal of the American Statisical Association. [ journal | arXiv | code ]
Label propagation defines signaling networks associated with recurrently mutated cancer genes. Scientific Reports. [ journal | bioRxiv ]
A unifying framework for interpreting and predicting mutualistic systems. Nature Communications. [ journal ]
Evolution of DNA methylation in Papio baboons. Molecular Biology and Evolution. [ journal | bioRxiv ]
Phylofactorization - a graph partitioning algorithm to identify phylogenetic scales of ecological data. Ecological Monographs [ bioRxiv ]
Dynamic linear models guide design and analysis of microbiota studies within artificial human guts. Microbiome [ journal | bioRxiv | code ]
Scalable Algorithms for Learning High-Dimensional Linear Mixed Models. Conference on Uncertainty in Artificial Intelligence [ conference | arXiv | code ]
Combinations of DIPs and Dprs control organization of olfactory receptor neuron terminals in Drosophila. PLoS Genetics [ journal ]
Adaptive Randomized Dimension Reduction on Massive Data. Journal of Machine Learning Research [ journal | arXiv | code ]
Fast moment estimation for generalized latent Dirichlet models. Journal of the American Statistical Association [ journal | arXiv | code ]
Bayesian Approximate Kernel Regression with Variable Selection. Journal of the American Statistical Association [ journal | arXiv | code ]
Melanoma therapeutic strategies that select against resistance by exploiting MYC-driven evolutionary convergence. Cell Reports [ journal ]
HOMINID: A framework for identifying associations between host genetic variation and microbiome composition. GigaScience [ bioRxiv | journal | code | webtool ]
Detecting Epistasis in Genome-wide Association Studies with the Marginal Epistasis Test. PLoS Genetics [ journal | bioRxiv | code ]
Differential Expression Analysis for RNAseq using Poisson Mixed Models. Nucleic Acids Research [ journal | bioRxiv | code ]
Partitioned Tensor Factorizations for Learning Mixed Membership Models. International Conference on Machine Learning [ conference | arXiv | code ]Geometric representations of random hypergraphs. Journal of the American Statistical Association [ journal | arXiv ]
A phylogenetic transform enhances analysis of compositional microbiota data. eLife. [ journal | bioRxiv | website | code ]
Phylogenetic factorization of compositional data. PeerJ. [ journal | bioRxiv | code ]
Topological consistency via kernel estimation. Bernoulli. [ journal | arXiv ]
Efficient Genome-Wide Sequencing and Low-Coverage Pedigree Analysis from Noninvasively Collected Samples. Genetics. [ journal | bioRxiv | code ]
Fast Principal-Component Analysis Reveals Convergent Evolution of ADH1B in Europe and East Asia. American Journal of Human Genetics. [ journal | bioRxiv | code ]
Random walks on simplicial complexes and harmonics. Random Structures & Algorithms [ journal | arXiv ]
Bayesian group factor analysis with structured sparsity. Journal of Machine Learning Research [ journal | code ]
Statistical inference for dynamical systems: A review. Statistical Surveys [ journal | arXiv ]
Contour Trees of Uncertain Terrains. ACM SIGSPATIAL Conference on Advances in Geographic Information Systems [ journal ]
Citizen Science as a New Tool in Dog Cognition Research. PLOS One [ journal ]
Probabilistic Fréchet means for time varying persistence diagrams. Electronic Journal of Statistics [ journal | arXiv ]
The Information Geometry of Mirror Descent. IEEE Transactions of Information Theory [ journal | arXiv ]
Consistency of maximum likelihood estimation for some dynamical systems. Annals of Statistics [ journal | arXiv ]
The topology of probability distributions on manifolds. Probability Theory and Related Fields [ journal | arXiv ]
Cumulon: Cloud-Based Statistical Analysis from Users Perspective. IEEE Bulletin on Data Engineering. [ journal ]
Core and region-enriched networks of behaviorally regulated genes and the singing genome. Science. [ journal ]
Persistent Homology Transform for Modeling Shapes and Surfaces. Information and Inference. [ journal | bioRxiv ]
A new fully automated approach for aligning and comparing shapes. The Anatomical Record. [ journal | website | code ]
Novel Distal eQTL Analysis Demonstrates Effect of Population Genetic Architecture on Detecting and Interpreting Associations. Genetics. [ journal | website ]
GSAASeqSP: A Toolset for Gene Set Association Analysis of RNA-Seq Data. Scientific Reports. [ journal | website ]
A Cheeger-Type Inequality on Simplicial Complexes. Advances in Applied Mathematics. [ journal | arxiv ]
Frechet Means for Distributions of Persistence Diagrams Discete and Computational Geometry. [ journal | arxiv ]
A Digital Network Approach to Infer Sex Behavior in Emerging HIV Epidemics. PLOS ONE. [ journal ]
Statistical Analysis of Crystallization Database Links Protein Physico-Chemical Features with Crystallization Mechanisms. PLOS ONE. [ journal ]
Distinct and Overlapping Sarcoma Subtypes Initiated from Muscle Stem and Progenitor Cells. Cell Reports. [ journal ]
Genome-wide identification and predictive modeling of tissue-specific alternative polyadenylation. Bioinformatics. [ journal ]
DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types. Genome Research. [ journal ]
A comparative study of covariance selection models for the inference of gene regulatory networks. Journal of Medical Bioinformatics. [ journal ]
Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits. Genome Biology. [ journal ]
Partial factor modeling: predictor-dependent shrinkage for linear regression. Journal of the American Statistical Association. [ journal | arxiv | code ]
Kernel Sliced Inverse Regression: Regularization and Consistency. Abstract and Applied Analysis. [ journal | code ]
Assessing the radiation response of lung cancer with different gene mutations using genetically engineered mice. Frontiers in Oncology. [ journal ]
Dissecting High-Dimensional Phenotypes with Bayesian Sparse Factor Analysis of Genetic Covariance Matrices. Genetics. [ journal | code ]
Genetics of gene expression responses to temperature stress in a sea urchin gene network. Molecular Ecology. [ journal ]
Predictive Framework for Integrating Disparate Genomic Data Types Using Sample-Specific Gene Set Enrichment Analysis and Multi-Task Learning. PLOS One. [ journal ]
Genetic effects on mating success and partner choice in a social mammal. American Naturalist. [ journal ]
Cyclin-Dependent Kinases Are Regulators and Effectors of Oscillations Driven by a Transcription Factor Network. Molecular Cell. [ journal ]
Homology Transfer and Stratification Learning. ACM-SIAM Symposium on Discrete Algorithms. [ journal ]
Probability measures on the space of persistence diagrams. Inverse Problems. [ journal ]
Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets. Genome Research. [ journal | website ]
RS-SNP: a random-set method for genome-wide association studies. BMC Genomics. [ journal ]
Discovering genetic variants in Crohn's disease by exploring genomic regions enriched of weak association signals. Digestive and Liver Disease. [ journal ]
Cross Species Genomic Analysis Identifies a Mouse Model as Undifferentiated Pleomorphic Sarcoma/Malignant Fibrous Histiocytoma. PLOS One. [ journal ]
Estimating variable structure and dependence in Multi-task learning via gradients. Machine Learning. [ journal | working paper ]
On the reproducibility of results of pathway analysis in genome-wide expression studies of colorectal cancers. Journal of Biomedical Informatics. [ journal ]
Localized Sliced Inverse Regression. Journal of Computational and Graphical Statistics. [ journal | working paper | code ]
Learning gradients: predictive models that infer geometry and dependence. Journal of Machine Learning Research. [ journal ]
Supervised Dimension Reduction Using Bayesian Mixture Modeling. International Conference on Artificial Intelligence and Statistics. [ journal | code ]
Learning Gradients and Feature Selection on Manifolds. Bernoulli. [ journal | arxiv ]
Evidence-ranked motif identification. Genome Biology. [ journal | website ]
Comparative study of gene set enrichment methods. BMC Bionformatics. [ journal ]
Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation. Molelcular Biology and Evolution. [ journal ]
Do serum biomarkers really measure breast cancer?. BMC Cancer. [ journal ]
Characterizing the developmental pathways TTF-1, NKX2-8, and PAX9 in lung cancer. Proc. Natl. Acad. Sci. USA. [ journal ]
Local sliced inverse regression. Advances in Neural Information Processing Systems 21. [ journal | code ]
Modeling cancer progression via pathway dependencies. PLoS Comput Biol. [ journal ]
Gene Expression Programs of Human Smooth Muscle Cells: Tissue-Specific Differentiation and Prognostic Significance in Breast Cancers. PLoS Genetics. [ journal ]
Understanding the use of unlabelled data in predictive modelling. Statistical Science. [ journal | arxiv ]
Characterizing the Function Space for Bayesian Kernel Models. Journal of Machine Learning Research. [ journal ]
Genomic sweeping for hypermethylated genes. Bioinformatics. [ journal ]
Evidence of influence of genomic DNA sequence on human X chromosom inactivation. PLoS Comput Biol. [ journal ]
Analysis of Sample Set Enrichment Scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles. Bioinformatics. [ journal | website ]
Gene expression changes and moelcular pathways mediating activity-dependent plasticity in visual cortex. Nat Neurosci. [ journal ]
Estimation of Gradients and Coordinate Covariation in Classification. Journal of Machine Learning Research. [ journal ]
Learning Coordinate Covariances via Gradients. Journal of Machine Learning Research. [ journal ]
Statistical Learning: Stability is Sufficient for Generalization and Necessary and Sufficient for Consistency of Empirical Risk Minimization. Adv Comput Math. [ journal ]
Gene Set Enrichment Analysis: A Knowledge-Based Approach for Interpreting Genome-wide Expression Profiles. Proc Natl Acad Sci USA. [ journal | website ]
An oncogenic KRAS2 expression signature identified by cross-species gene-expression analysis. Nat Genet. [ journal ]
Stability Results in Learning Theory. Anal App. [ journal ]
Permutation Tests for Classification. Proceedings of the Conference on Learning Theory. [ journal | working paper ]
Risk Bounds for Mixture Density Estimation. ESAIM: Probability and Statistics. [ journal ]
Androgen-Induced Differentiation and Tumorigenicity of Human Prostate Epithelial Cells. Cancer Research. 2004. [ journal ]Learning Theory: general conditions for predictivity. Nature. 2004. [ journal ]
Estimating Dataset Size Requirements for Classifying DNA Microarray Data. J Comput Biol. 2003. [ journal ]
An Analytical Method for Multi-class Molecular Cancer Classification. SIAM Reviews. 2003. [ journal ]
Optimal gene expression analysis by microarrays. Cancer Cell. 2002. [ journal ]
Gene Expression-Based Classification and Outcome Prediction of Central Nervous System Embryonal Tumors. Nature. 2002. [ journal ]
Choosing Multiple Parameters for Support Vector Machines. Machine Learning. 2002. [ journal ]
A Uniform Approach to Molecular Cancer Diagnosis Using Tumor Gene Expression Signatures. Proc Natl Acad Sci U S A. 2001. [ journal ]
Molecular classification of multiple tumor types. Bioinformatics. 2001. [ journal ]
Bounds on sample size for policy evaluation in Markov environments. Broceedings of the Conference on Learning Theory. 2001. [ journal | arxiv ]
Feature Selection for SVMs. Advances in Neural Information Processing Systems. 2000. [ journal ]
Support Vector Method for Multivariate Density Estimation. Advances in Neural Information Processing Systems. 1999. [ journal ]