Deep learning identifies 30 common bacterial pathogens from Raman spectra.
problem Rapid and accurate identification of pathogenic bacteria.
method State-of-the-art deep learning applied to large Raman spectroscopy dataset.
result 99.0% accuracy in identifying 30 common bacterial pathogens.
Paper uses machine learning to identify key pathways for c-di-GMP in bacterial genomes.
problem Understanding pathways essential for c-di-GMP in bacterial cellulose production.
method Applied Lasso and Random Forests for feature selection and modeling gene count data.
result Bacterial chemotaxis is identified as the most essential pathway for c-di-GMP encoding domains.
Machine learning identifies key metabolic control circuits in bacterial pathways.
problem Identifying regulated metabolic pathways in bacteria.
method Machine learning approach analyzing multi-omics data.
result Identification of E. coli Glycolysis regulatory circuits.
Logistic regression with wavelets achieves bacterial infection detection accuracy.
problem Interpreting complex biomedical signal models for high-stakes decisions.
method Wavelet features and knockoff variables for feature selection.
result Logistic regression outperforms neural networks in bacterial infection detection.
Deep learning automates bacterial image classification.
problem Manual bacterial classification is time-consuming and error-prone.
method ResNet-50 pre-trained CNN architecture with transfer learning.
result Average classification accuracy of 99.2%.
New method improves support estimation for unknown distributions.
problem Estimating the support size of an unknown distribution.
method Regularized Weighted Chebyshev Approximations, joint optimization of bias and variance, linear programming.
result Significant improvements in worst-case risk for synthetic data and accurate bacterial genus estimation for microbiome data.
Study uses machine learning to optimize antibiotic therapy for MRSA skin infections.
problem Optimizing antibiotic choice for MRSA skin infections due to reduced treatment options and side effects.
method Propensity score matching, machine learning models (SVM, RF, LASSO), counterfactual analysis.
result RF model shows stronger treatment heterogeneity and potential for therapy change.
Bayesian model fuses diverse microbiome data types.
problem Challenges in fusing different types of microbiome data.
method Flexible multinomial-Gaussian generative model with variational EM algorithm.
result Inferred latent variables provide common dimensionality reduction and predictive posterior distribution.
Machine learning model diagnoses COVID-19 from routine blood tests.
problem Difficulty in diagnosing COVID-19 due to inconsistent blood parameter changes.
method Constructed a machine learning model using 5,333 patients with various infections and 160 COVID-19-positive patients.
result Cross-validated AUC of 0.97, sensitivity of 81.9%, specificity of 97.9%.
We consider the problem of joint modelling of metabolic signals and gene expression in systems biology applications. We propose an approach based on input-output factorial hidden Markov models and propose a structured variational inference approach to infer the structure and states of the model. We start from the class…
Antimicrobial resistance is an important public health concern that has implications in the practice of medicine worldwide. Accurately predicting resistance phenotypes from genome sequences shows great promise in promoting better use of antimicrobial agents, by determining which antibiotics are likely to be effective i…
Increasingly complex generative models are being used across disciplines as they allow for realistic characterization of data, but a common difficulty with them is the prohibitively large computational cost to evaluate the likelihood function and thus to perform likelihood-based statistical inference. A likelihood-free…
Paper explores using EEG for better speaker identification, even in noisy environments.
problem Speaker identification performance degrades in background noise.
method Uses EEG signals to enhance speaker identification systems, comparing with acoustic features.
result Speaker identification system using only EEG features outperforms one using only acoustic features in high background noise.
In the present paper we study interval identification systems of order three. We prove that the Rauzy induction preserves symmetry: for any symmetric interval identification system of order three after finitely many iterations of the Rauzy induction we always obtain a symmetric system. We also provide an example of sym…
Improved likelihood-free inference for high-dimensional models.
problem Challenges in likelihood-free inference for high-dimensional parameter spaces.
method Bayesian optimization-based approach with misspecification-robust characterisation.
result Efficient inference in 100-dimensional space with real data application.
Improved driver identification accuracy using steering wheel data.
problem Accurately identifying drivers based on naturalistic driving behavior.
method Novel approach for window length parameter design, leveraging GRUs neural network.
result Increased driver identification accuracy from under 15% to over 65%.
Simplified identification methods for causal inference with arbitrary interventional distributions.
problem Estimating cause-effect relationships from data with experimental interventions.
method Using Single World Intervention Graphs and nested model factorization, we provide algorithms for identifying causal parameters from mixed observational and interventional distributions.
result Our algorithms are complete for certain types of interventional marginal distributions.
Coregulation of the expression of groups of genes has been extensively demonstrated empirically in bacterial and eukaryotic systems. Such coregulation can arise through the use of shared regulatory motifs, which allow the coordinated expression of modules (and module groups) of functionally related genes across the gen…
Cyclic coordinate descent identifies models in finite time and converges linearly.
problem Model identification in composite nonsmooth optimization problems.
method Cyclic coordinate descent for a wide class of functions.
result Explicit local linear convergence rates for coordinate descent.
Study on identifying and inferring nonlinear dynamics on unknown networks.
problem Identifying network structure in nonlinear dynamic systems with unknown interactions.
method Showed network structure is not generically identified, requiring sufficient spectral heterogeneity. Developed necessary and sufficient conditions for identification and proposed a semiparametric estimator.
result Necessary and sufficient conditions for identification of network structure in nonlinear dynamic systems.
Many complex ecosystems, such as those formed by multiple microbial taxa, involve intricate interactions amongst various sub-communities. The most basic relationships are frequently modeled as co-occurrence networks in which the nodes represent the various players in the community and the weighted edges encode levels o…
New findings on complexity limits in fixed budget bandit identification.
problem Determining the best possible error rate for fixed budget bandit identification.
method Analyzing the best non-adaptive sampling procedures and showing the existence of complexities.
result No fixed complexity for certain bandit identification tasks.
Wi-Fi signals-based person identification attracts increasing attention in the booming Internet-of-Things era mainly due to its pervasiveness and passiveness. Most previous work applies gaits extracted from WiFi distortions caused by the person walking to achieve the identification. However, to extract useful gait, a p…
Deep learning's convolutional networks improve system identification.
problem Nonlinear system identification problems.
method Exploration of relationships between TCN and Volterra series/block-oriented models.
result TCN outperforms traditional models in sequence modeling tasks.
Review of automatic de-identification systems for EHR, highlighting challenges beyond accuracy.
problem Challenges in surrogate generation and patient privacy in de-identification of EHR.
method Comprehensive review of 18 recently published systems, focusing on accuracy and challenges.
result Despite accuracy improvements, challenges remain in surrogate generation and patient privacy.
Bayesian methods reduce variance in subspace identification for small data sets.
problem High variance in traditional subspace identification methods for large models or small sample sizes.
method Investigation of Bayesian estimation solutions (regularized and shrinkage estimators) for subspace identification.
result Bayesian estimators reduce estimation risk by up to 40% compared to traditional methods.
Equation discovery method reconstructs model structure and parameters from data.
problem Nonlinear system identification challenges.
method Two interlaced parts: model structure identification and parameter estimation.
result Equation discovery method successfully reconstructs model structure and parameters from data.
A tutorial on non-asymptotic system identification methods.
problem Identifying system parameters in linear models.
method Covering technique, Hanson-Wright Inequality, method of self-normalized martingales.
result Streamlined proofs of least-squares based estimator performance.
A new algorithm identifies one of several nearly optimal arms in linear bandits.
problem Identifying one arm that is close to the best arm in linear bandits.
method Developed a procedure to adapt best-arm identification algorithms for ε-best-answer identification in transductive linear stochastic bandits. result Proposed an asymptotically optimal algorithm for ε-best-answer identification. Online algorithm identifies PDEs from noisy data snapshots.
problem Identifying PDEs from sequential solution snapshots.
method Combines weak-form discretization with online proximal gradient descent.
result Efficiently identifies and tracks systems with time-varying coefficients.
A distributed system identification method for LTI systems using reverse experience replay.
problem Online system identification of LTI systems over multi-agent networks.
method DSGD-RER, a distributed variant of SGD-RER with backward updates.
result The estimation error decreases as the network size grows.
Tutorial on using concentration inequalities for linear system identification.
problem Learning state-space parameters of linear systems.
method Large-deviations and self-normalized martingales.
result Data-dependent and independent bounds on learning rate.
dynoGP uses deep Gaussian processes for dynamic system identification.
problem System identification for complex dynamical systems.
method Interconnecting linear dynamic GPs and static GPs to model dynamic and static nonlinearities.
result Demonstrates effectiveness of the approach using both simulated and real-world data.
Proposes SPCA to incorporate structural constraints in model identification.
problem Model identification with partial structural knowledge.
method Structural Principal Component Analysis (SPCA) that leverages structural information.
result Demonstrates improved model estimates using synthetic and industrial data.
ADSGD method speeds up model identification in sparse optimization.
problem Implicit model identification in sparse optimization problems.
method Accelerated Doubly Stochastic Gradient Method (ADSGD) for faster explicit model identification.
result ADSGD achieves faster explicit model identification and improved algorithm efficiency.
Study shows neural networks outperform traditional methods in speaker identification.
problem Open-set speaker identification with large populations.
method Discriminative neural networks compared to Gaussian mixture models.
result Multi-class neural networks outperform traditional methods for large speaker populations.
This paper tackles Bayesian system identification with probabilistic numerical methods.
problem Accurately modeling nonlinear dynamic systems from noisy data.
method Probabilistic Sequential Monte Carlo (SMC) combined with probabilistic numerical integration.
result Efficient identification of latent states and system parameters from noisy measurements.
Study measures uncertainty in MST identification across different correlation networks.
problem Uncertainty in MST identification across various correlation-based market networks.
method Developed a framework using random variable networks (RVN) to measure uncertainty of MST identification.
result FDR is the most appropriate measure for MST identification reliability.
Paper improves phase identification in power systems using information theory.
problem Improving supervised learning accuracy in phase identification.
method Developed two new techniques based on information theory.
result Significant improvement in phase identification accuracy (e.g., from 51.7% to 97.3%).
Optimal best-arm identification in linear bandits reduces sampling budget.
problem Identifying the best arm with fixed confidence in stochastic linear bandits.
method A simple algorithm that tracks an optimal proportion of arm draws, updated as rarely as desired.
result The algorithm's sampling complexity matches known lower bounds, asymptotically almost surely and in expectation.
Objective: Patient notes in electronic health records (EHRs) may contain critical information for medical investigations. However, the vast majority of medical investigators can only access de-identified notes, in order to protect the confidentiality of patients. In the United States, the Health Insurance Portability a…
Patient notes contain a wealth of information of potentially great interest to medical investigators. However, to protect patients' privacy, Protected Health Information (PHI) must be removed from the patient notes before they can be legally released, a process known as patient note de-identification. The main objectiv…
Comment on deconfounder method, highlighting causal identification issues and risks of parametric assumptions.
problem Causal identification issues in settings where deconfounder method is suggested.
method Summarizing arguments against causal identification, cautioning on parametric assumptions, and discussing nonparametric identification results.
result Nonparametric identification results may be more interesting for detecting causal identification from observed data.
This research improves deep neural networks for parameter identification and prediction in stochastic Volterra integral equations.
problem Parameter identification and prediction in Volterra integral equations driven by Gaussian noise.
method Improved deep neural networks framework that incorporates inter-output relationships into the loss function.
result The framework enhances parameter estimation accuracy and provides accurate solutions for modeling stochastic systems.
Modeling dynamical systems is important in many disciplines, e.g., control, robotics, or neurotechnology. Commonly the state of these systems is not directly observed, but only available through noisy and potentially high-dimensional observations. In these cases, system identification, i.e., finding the measurement map…
Efficiently identifies best policies in tabular MDPs with reduced computational cost.
problem Identifying the best policy in tabular MDPs with high computational cost.
method Combines posterior sampling with online learning to achieve asymptotic optimality.
result Achieves optimal sample complexity and posterior contraction rate with O(S2AH) per episode. Consistent partial identification of causal effects proved for neural models.
problem Consistency of neural causal partial identification methods.
method Proving consistency for neural models with continuous and categorical variables, considering architecture design and Lipschitz regularization.
result Proven consistency of partial identification via neural causal models in a general setting.
New gait segmentation method identifies users and adversaries with high accuracy.
problem Simultaneous identification of users and adversaries from accelerometer data.
method Geometric features and a new similarity metric for time series analysis.
result 98.79% accuracy for 6 classes (user-adversary identification) and 99.06% for binary (user only identification).