Given an instance, a multi-event survival model predicts the time until that instance experiences each of several different events. These events are not mutually exclusive and there are often statistical dependencies between them. There are relatively few multi-event survival results, most focusing on producing a simple risk score, rather than the time-to-event itself. To overcome these issues, we introduce MENSA, a novel, deep learning approach for multi-event survival analysis that can jointly learn representations of the input covariates and the dependence structure between events. As a practical motivation for multi-event survival analysis, we consider the problem of predicting the time until a patient with amyotrophic lateral sclerosis (ALS) loses various physical functions, i.e., the ability to speak, swallow, write, or walk. When estimating when a patient is no longer able to swallow, our approach achieves an L1-Margin loss of 278.8 days, compared to 355.2 days when modeling each event separately. In addition, we also evaluate our approach in single-event and competing risk scenarios by modeling the censoring and event distributions as equal contributing factors in the optimization process, and show that our approach performs well across multiple benchmark datasets. The source code is available at: https://github.com/thecml/mensa

Ensemble methods such as random forests have transformed the landscape of supervised learning, offering highly accurate prediction through the aggregation of multiple weak learners. However, despite their effectiveness, these methods often lack transparency, impeding users' comprehension of how RF models arrive at their predictions. Explainable ensemble trees (E2Tree) is a novel methodology for explaining random forests, that provides a graphical representation of the relationship between response variables and predictors. A striking characteristic of E2Tree is that it not only accounts for the effects of predictor variables on the response but also accounts for associations between the predictor variables through the computation and use of dissimilarity measures. The E2Tree methodology was initially proposed for use in classification tasks. In this paper, we extend the methodology to encompass regression contexts. To demonstrate the explanatory power of the proposed algorithm, we illustrate its use on real-world datasets.

We argue that there are two major distinct capabilities in long context understanding: retrieval and holistic understanding. Understanding and further improving LLMs' long context capabilities would not be possible without knowing the tasks' focus categories. We aim to automatically identify retrieval focused and holistic understanding focused problems from suites of benchmarks and quantitatively measure the difficulty within each focus. In this paper, we present the Dolce framework, which parameterizes each problem by $\lambda$ (complexity) and $k$ (redundancy) and assigns to one of five predefined focus categories. We propose to sample short contexts from the full context and estimate the probability an LLM solves the problem using the sampled spans. To find the $\lambda$ and $k$ for each problem, we further propose a mixture model of a non-parametric background noise component and a parametric/non-parametric hybrid oracle component, where we derive the probability functions parameterized by $\lambda$ and $k$ for both the correct-or-wrong (COW) scenario and the partial-point-in-grading (PIG) scenario. Our proposed methods can identify 0% to 67% of the problems are retrieval focused and 0% to 90% of the problems are holistic understanding focused across 44 existing long context evaluation tasks.

Characterization of materials via electron micrographs is an important and challenging task in several materials processing industries. Classification of electron micrographs is complex due to the high intra-class dissimilarity, high inter-class similarity, and multi-spatial scales of patterns. However, existing methods are ineffective in learning complex image patterns. We propose an effective end-to-end electron micrograph representation learning-based framework for nanomaterial identification to overcome the challenges. We demonstrate that our framework outperforms the popular baselines on the open-source datasets in nanomaterials-based identification tasks. The ablation studies are reported in great detail to support the efficacy of our approach.

This paper introduces a novel Soft Acoustic Curvature (SAC) sensor. SAC incorporates integrated audio components and features an acoustic channel within a flexible structure. A reference acoustic wave, generated by a speaker at one end of the channel, propagates and is received by a microphone at the other channel's end. Our previous study revealed that acoustic wave energy dissipation varies with acoustic channel deformation, leading us to design a novel channel capable of large deformation due to bending. We then use Machine Learning (ML) models to establish a complex mapping between channel deformations and sound modulation. Various sound frequencies and ML models were evaluated to enhance curvature detection accuracy. The sensor, constructed using soft material and 3D printing, was validated experimentally, with curvature measurement errors remaining within 3.5 m-1 for a range of 0 to 60 m-1 curvatures. These results demonstrate the effectiveness of the proposed method for estimating curvatures. With its flexible structure, the SAC sensor holds potential for applications in soft robotics, including shape measurement for continuum manipulators, soft grippers, and wearable devices.

In this work, we apply state-of-the-art self-supervised learning techniques on a large dataset of seafloor imagery, \textit{BenthicNet}, and study their performance for a complex hierarchical multi-label (HML) classification downstream task. In particular, we demonstrate the capacity to conduct HML training in scenarios where there exist multiple levels of missing annotation information, an important scenario for handling heterogeneous real-world data collected by multiple research groups with differing data collection protocols. We find that, when using smaller one-hot image label datasets typical of local or regional scale benthic science projects, models pre-trained with self-supervision on a larger collection of in-domain benthic data outperform models pre-trained on ImageNet. In the HML setting, we find the model can attain a deeper and more precise classification if it is pre-trained with self-supervision on in-domain data. We hope this work can establish a benchmark for future models in the field of automated underwater image annotation tasks and can guide work in other domains with hierarchical annotations of mixed resolution.

For the problem of reconstructing a low-rank matrix from a few linear measurements, two classes of algorithms have been widely studied in the literature: convex approaches based on nuclear norm minimization, and non-convex approaches that use factorized gradient descent. Under certain statistical model assumptions, it is known that nuclear norm minimization recovers the ground truth as soon as the number of samples scales linearly with the number of degrees of freedom of the ground-truth. In contrast, while non-convex approaches are computationally less expensive, existing recovery guarantees assume that the number of samples scales at least quadratically with the rank $r$ of the ground-truth matrix. In this paper, we close this gap by showing that the non-convex approaches can be as efficient as nuclear norm minimization in terms of sample complexity. Namely, we consider the problem of reconstructing a positive semidefinite matrix from a few Gaussian measurements. We show that factorized gradient descent with spectral initialization converges to the ground truth with a linear rate as soon as the number of samples scales with $ \Omega (rd\kappa^2)$, where $d$ is the dimension, and $\kappa$ is the condition number of the ground truth matrix. This improves the previous rank-dependence in the sample complexity of non-convex matrix factorization from quadratic to linear. Our proof relies on a probabilistic decoupling argument, where we show that the gradient descent iterates are only weakly dependent on the individual entries of the measurement matrices. We expect that our proof technique is of independent interest for other non-convex problems.

Understanding the behavior of complex molecular systems is a fundamental problem in physical chemistry. To describe the long-time dynamics of such systems, which is responsible for their most informative characteristics, we can identify a few slow collective variables (CVs) while treating the remaining fast variables as thermal noise. This enables us to simplify the dynamics and treat it as diffusion in a free-energy landscape spanned by slow CVs, effectively rendering the dynamics Markovian. Our recent statistical learning technique, spectral map [Rydzewski, J. Phys. Chem. Lett. 2023, 14, 22, 5216-5220], explores this strategy to learn slow CVs by maximizing a spectral gap of a transition matrix. In this work, we introduce several advancements into our framework, using a high-dimensional reversible folding process of a protein as an example. We implement an algorithm for coarse-graining Markov transition matrices to partition the reduced space of slow CVs kinetically and use it to define a transition state ensemble. We show that slow CVs learned by spectral map closely approach the Markovian limit for an overdamped diffusion. We demonstrate that coordinate-dependent diffusion coefficients only slightly affect the constructed free-energy landscapes. Finally, we present how spectral map can be used to quantify the importance of features and compare slow CVs with structural descriptors commonly used in protein folding. Overall, we demonstrate that a single slow CV learned by spectral map can be used as a physical reaction coordinate to capture essential characteristics of protein folding.

To efficiently express tensor data using the Tucker format, a critical task is to minimize the multilinear rank such that the model would not be over-flexible and lead to overfitting. Due to the lack of rank minimization tools in tensor, existing works connect Tucker multilinear rank minimization to trace norm minimization of matrices unfolded from the tensor data. While these formulations try to exploit the common aim of identifying the low-dimensional structure of the tensor and matrix, this paper reveals that existing trace norm-based formulations in Tucker completion are inefficient in multilinear rank minimization. We further propose a new interpretation of Tucker format such that trace norm minimization is applied to the factor matrices of the equivalent representation, rather than some matrices unfolded from tensor data. Based on the newly established problem formulation, a fixed point iteration algorithm is proposed, and its convergence is proved. Numerical results are presented to show that the proposed algorithm exhibits significant improved performance in terms of multilinear rank learning and consequently tensor signal recovery accuracy, compared to existing trace norm based Tucker completion methods.

Estimating a distribution given access to its unnormalized density is pivotal in Bayesian inference, where the posterior is generally known only up to an unknown normalizing constant. Variational inference and Markov chain Monte Carlo methods are the predominant tools for this task; however, both are often challenging to apply reliably, particularly when the posterior has complex geometry. Here, we introduce Soft Contrastive Variational Inference (SoftCVI), which allows a family of variational objectives to be derived through a contrastive estimation framework. The approach parameterizes a classifier in terms of a variational distribution, reframing the inference task as a contrastive estimation problem aiming to identify a single true posterior sample among a set of samples. Despite this framing, we do not require positive or negative samples, but rather learn by sampling the variational distribution and computing ground truth soft classification labels from the unnormalized posterior itself. The objectives have zero variance gradient when the variational approximation is exact, without the need for specialized gradient estimators. We empirically investigate the performance on a variety of Bayesian inference tasks, using both simple (e.g. normal) and expressive (normalizing flow) variational distributions. We find that SoftCVI can be used to form objectives which are stable to train and mass-covering, frequently outperforming inference with other variational approaches.