Sparse neural networks visualize paired transcriptomic and electrophysiological data.
problem Efficiently analyzing and visualizing paired multivariate neuroscientific data.
method Sparse deep neural networks with a two-dimensional bottleneck and group lasso penalty.
result Biologically interpretable two-dimensional visualizations of paired data.
Latent variable models have been widely applied for the analysis of time series resulting from experimental neuroscience techniques. In these datasets, observations are relatively smooth and possibly nonlinear. We present Variational Inference for Nonlinear Dynamics (VIND), a variational inference framework that is abl…
The increasing access to brain signal data using electroencephalography creates new opportunities to study electrophysiological brain activity and perform ambulatory diagnoses of neuronal diseases. This work proposes a pairwise distance learning approach for Schizophrenia classification relying on the spectral properti…
This study shows how EEG can be used to generate fMRI data.
problem Mapping fMRI from EEG signals.
method Deep learning approaches (Autoencoders, GANs, Pairwise Learning).
result Feasibility of EEG to fMRI brain image mappings.
Neural memory networks improve seizure type classification.
problem Automating the classification of seizure type for clinical and research purposes.
method Introduced a novel approach using neural memory networks (NMNs) enhanced with external memory modules and trainable neural plasticity.
result Achieved a state-of-the-art weighted F1 score of 0.945 for seizure type classification.
We review some of the latest approaches to analysing cardiac electrophysiology data using machine learning and predictive modelling. Cardiac arrhythmias, particularly atrial fibrillation, are a major global healthcare challenge. Treatment is often through catheter ablation, which involves the targeted localized destruc…
Proposes a nonparametric approach for inferring spike train filters.
problem Modeling neuron information encoding from electrophysiological recordings.
method Gaussian process framework for joint inference of filters and hyperparameters.
result Automatic learning of filter temporal span and stimulus/history filters.
Researchers use operator learning to predict cardiac activation and repolarization times.
problem Computational demands and need for clear, interpretable information in cardiac electrophysiology.
method Exploiting Fourier Neural Operators (FNO) and Kernel Operator Learning (KOL) to learn operator mappings.
result Both FNO and KOL approaches are computationally efficient and robust to hyperparameters.
Novel method embeds generative model into Bayesian optimization for HD cardiac model parameter estimation.
problem High-dimensional optimization of patient-specific cardiac model parameters with limited data.
method Embeds a generative variational auto-encoder into the objective function of Bayesian optimization.
result Improves accuracy of parameter estimation with more than 10x gain in efficiency.
The paper highlights the importance of model discrepancy in cardiac simulations.
problem Uncertainty in model structure and equations affects predictions.
method The authors use Gaussian processes and autoregressive-moving-average models to account for model discrepancy.
result Different methods to account for model discrepancy have advantages and shortcomings.
This paper compares spike sorting techniques for rat brain neuronal activity.
problem Improving the accuracy of spike sorting for neuronal activity analysis.
method Three-step spike sorting process: detection, feature extraction, and clustering. Various methods are compared.
result Kernel PCA outperforms in feature extraction, leading to better spike sorting results.
We consider the problem of locating a point-source heart arrhythmia using data from a standard diagnostic procedure, where a reference catheter is placed in the heart, and arrival times from a second diagnostic catheter are recorded as the diagnostic catheter moves around within the heart. We model this situation as a …
This paper improves parameter estimation in cardiac models using Gaussian process-based MH sampling.
problem Uncertainty in estimating patient-specific model parameters from sparse and noisy clinical data.
method Integrates surrogate modeling into Metropolis-Hastings sampling to improve computational efficiency and accuracy.
result Significant gain in computational efficiency without compromising accuracy, and insights into tissue heterogeneity.
An electrocardiogram (EKG) is a common, non-invasive test that measures the electrical activity of a patient's heart. EKGs contain useful diagnostic information about patient health that may be absent from other electronic health record (EHR) data. As multi-dimensional waveforms, they could be modeled using generic mac…
The increasing size and complexity of scientific data could dramatically enhance discovery and prediction for basic scientific applications. Realizing this potential, however, requires novel statistical analysis methods that are both interpretable and predictive. We introduce Union of Intersections (UoI), a flexible, m…
LISBET automates social behavior analysis using machine learning.
problem Manual annotation of social behaviors is time-consuming, biased, and misses subtle interactions.
method Self-supervised learning on body tracking data.
result Automated detection and segmentation of social interactions.
Estimates neural representation dimensionality from small sample sizes.
problem Estimating neural representation dimensionality from limited data.
method Proposed a bias-corrected estimator for participation ratio of eigenvalues.
result The estimator is more accurate with finite samples and noise.
A method uses autoencoders to align multi-modal neuron data.
problem Inconsistent cell type definitions across different data modalities.
method Coupled training of autoencoders for cross-modal alignment.
result Representations learned by coupled autoencoders can identify single-modality sampled cell types.
HNPE uses auxiliary data to estimate parameters in uncertain models.
problem Uncertain models with identical observations.
method Exploits global parameters from auxiliary data to estimate parameters.
result Validated on a motivating example and applied to neuroscience.
hyperSBINN improves drug cardiosafety assessment by efficiently modeling cardiac action potentials.
problem Complexity and limited data in modeling cardiac effects of drugs.
method Combining meta-learning with SBINNs to solve parameterized cardiac action potential models.
result hyperSBINN outperforms traditional solvers in speed and accuracy for predicting APD90 values.
The introduction of deep learning and transfer learning techniques in fields such as computer vision allowed a leap forward in the accuracy of image classification tasks. Currently there is only limited use of such techniques in neuroscience. The challenge of using deep learning methods to successfully train models in …
Framework for reconstructing nonlinear systems from multi-modal time series data.
problem Reconstructing nonlinear dynamical systems from multi-modal time series data.
method Dynamic interpretable recurrent neural networks coupled with generalized linear models for multi-modal data integration.
result Framework efficiently compensates for noisy or missing information in one data channel using other channels.
Develops a method to interpret deep learning models by identifying key features.
problem Revealing the decision-making process of blackbox models from raw data to predictions.
method Adversarial attacks to localize discriminative features with statistical guarantees.
result Locally identified features are both biologically plausible and statistically significant.
Method extracts time-localized clusters to explain deep learning models in ECG analysis.
problem Limited understanding of deep learning models in ECG analysis.
method Extracts time-localized clusters from model's internal representations.
result Enhances trust in AI-driven diagnostics and reveals clinically relevant patterns.
Deep convolutional neural networks (CNNs) have demonstrated impressive performance on visual object classification tasks. In addition, it is a useful model for predication of neuronal responses recorded in visual system. However, there is still no clear understanding of what CNNs learn in terms of visual neuronal circu…
Personalization of cardiac models involves the optimization of organ tissue properties that vary spatially over the non-Euclidean geometry model of the heart. To represent the high-dimensional (HD) unknown of tissue properties, most existing works rely on a low-dimensional (LD) partitioning of the geometrical model. Wh…
New estimator corrects bias in CKA for sparsely sampled neurons.
problem Bias in CKA for sparsely sampled neurons.
method Novel estimator that corrects for input and feature sampling.
result Reliable model-to-brain alignment with sparsely sampled neurons.
GAME improves matrix completion by considering subgroup-specific latent structures.
problem Heterogeneous data with overlapping categories, smoothing away subgroup-specific variation.
method Group-Aware Matrix Estimation (GAME) with overlapping nuclear-norm penalties.
result GAME outperforms global low-rank estimators in structured missingness regimes.
Method detects batch heterogeneity in genomic data.
problem Batch effects confound genomic diagnostics.
method Bayesian model evidence clustering.
result Detects batch effects without known labels.
SOS-VAE improves generative models for scientific applications by correcting decoder bias.
problem Bias in generative parameters due to supervised learning in VAEs.
method Develops SOS-VAE framework to influence decoder for predictive latent representation.
result Ensures reliable generative parameters for scientific applications.
Machine learning techniques typically rely on large datasets to create accurate classifiers. However, there are situations when data is scarce and expensive to acquire. This is the case of studies that rely on state-of-the-art computational models which typically take days to run, thus hindering the potential of machin…
New method handles indirect mediators in CMA for complex scenarios.
problem Handling indirect and multi-dimensional mediators in causal mediation analysis.
method Identifiable Variational Autoencoder (iVAE) architecture for multi-dimensional, indirectly observed mediators.
result Accurate estimation of direct and mediated effects in synthetic and semi-synthetic experiments.
In recent years, the electrocardiogram (ECG) has seen a large diffusion in both medical and commercial applications, fueled by the rise of single-lead versions. Single-lead ECG can be embedded in medical devices and wearable products such as the injectable Medtronic Linq monitor, the iRhythm Ziopatch wearable monitor, …
G-FuNK learns solutions for nonlinear PDEs on multiple domains and parameters.
problem Predicting time-dependent dynamics of complex systems governed by nonlinear PDEs with varying parameters and domains.
method Graph Fourier Neural Kernels combining domain-adapted and transferable components for non-diffusive and diffusive terms.
result G-FuNK achieves low relative errors on unseen domains and fiber fields, significantly accelerating predictions.
Identifies learning rules from neural network observables.
problem Determine the underlying plasticity rules governing learning in biological systems.
method Simulated idealized neuroscience experiments with artificial neural networks to generate a dataset of learning trajectories. Used linear and non-linear classifiers to identify learning rules from aggregate statistics of weights, activations, and activity changes.
result Different classes of learning rules can be separated solely on the basis of aggregate statistics of the weights, activations, or instantaneous layer-wise activity changes.
Big data sets must be carefully partitioned into statistically similar data subsets that can be used as representative samples for big data analysis tasks. In this paper, we propose the random sample partition (RSP) data model to represent a big data set as a set of non-overlapping data subsets, called RSP data blocks,…
A new method for handling imbalanced big data using ensembles and smart data.
problem Imbalanced data distribution in big data scenarios.
method Smart Data driven Decision Trees Ensemble (SD_DeTE) methodology.
result SD_DeTE outperforms Random Forest in handling imbalanced binary classification problems in big data.
Prevents sensitive data generation in diffusion models using labeled and unlabeled data.
problem Generating sensitive data in diffusion models using unlabeled data.
method Positive-Unlabeled Diffusion Models, approximating ELBO with labeled and unlabeled data.
result Prevents the generation of sensitive data without compromising image quality.
Study reveals Data Shapley's inconsistent performance in data selection tasks.
problem Inconsistency of Data Shapley's performance in data selection across different settings.
method Hypothesis testing framework and identification of utility functions.
result Data Shapley's performance is no better than random selection without specific constraints.
PRRO generates synthetic tabular data that improves SL performance and class distribution.
problem Low SL utility of synthetic data due to class imbalance and overlooked data relationships.
method Data pruning and column reordering to optimize SL utility.
result Synthetic data generated with PRRO enhances predictive performance and class distribution.
Defines data science as a natural ecosystem with challenges and missions.
problem Challenges and missions in data science due to 5D complexities and data life cycle phases.
method Systemic and data-centric view of data science as a fusion of data universe and its challenges, formalizing a general-purpose architecture.
result Essential data science as a natural ecosystem integrating specific disciplines and high-impact applications.
Synthetic data enhances analytics but requires careful volume management.
problem Accuracy of statistical methods on synthetic data vs. raw data.
method Synthetic Data Generation for Analytics framework using tabular diffusion models.
result Error rate decreases with more synthetic data but may stabilize or increase.
Proposes using probabilistic models for privacy-preserving synthetic data.
problem Designing high-quality synthetic data for privacy preservation.
method Formulate the problem through probabilistic modelling, choosing a model for the data.
result Statistical discoveries can be reliably reproduced from synthetic data.
New test ensures quality of shared data in machine learning.
problem Ensuring quality of external data in machine learning tasks.
method Distribution-free two-sample testing procedures grounded in conformal outlier detection.
result Identifies valuable external data agents for model personalization.
Paper creates fair synthetic data ensuring equal predictions across sensitive attributes.
problem Ensuring fair predictions across sensitive attributes in synthetic data.
method Equalizing target probability distributions across sensitive attributes in synthetic data generation.
result Synthetic data provides strong fair predictions, equal across all thresholds.
DPA preserves data distribution in reduced dimensions.
problem Loss of data distribution in dimension reduction.
method DPA combines encoder and decoder to match data distribution.
result DPA successfully reconstructs data distribution.
Efficient synthetic data generation improves model performance on tabular data.
problem Improving model robustness and performance with scarce or low-quality data.
method Hardness characterization to identify high-value training points, generating synthetic data only from these points.
result Synthetic data generated from hardest points outperforms non-targeted methods on tabular datasets.
For most problems in science and engineering we can obtain data sets that describe the observed system from various perspectives and record the behavior of its individual components. Heterogeneous data sets can be collectively mined by data fusion. Fusion can focus on a specific target relation and exploit directly ass…