The study analyzes the impact of constant and alternating magnetic fields and alternating electric fields on various growth parameters of soy plants: the germination energy and capacity, plants emergence and number, the Yield(II) of the fresh mass of seedlings, protein content, and photosynthetic parameters. Four cultivars were used: MAVKA, MERLIN, VIOLETTA, and ANUSZKA. Moreover, the advanced Machine Learning processing pipeline was proposed to distinguish the impact of physical factors on photosynthetic parameters. It is possible to distinguish exposition on different physical factors for the first three cultivars; therefore, it indicates that the EM factors have some observable effect on soy plants. Moreover, some influence of physical factors on growth parameters was observed. The use of ELM (Electromagnetic) fields had a positive impact on the germination rate in Merlin plants. The highest values were recorded for the constant magnetic field (CMF) - Merlin, and the lowest for the alternating electric field (AEF) - Violetta. An increase in terms of emergence and number of plants after seed stimulation was observed for the Mavka cultivar, except for the AEF treatment (number of plants after 30 days) (...)

Artificial neural networks (ANNs) are known to be powerful methods for many hard problems (e.g. image classification, speech recognition or time series prediction). However, these models tend to produce black-box results and are often difficult to interpret. Layer-wise relevance propagation (LRP) is a widely used technique to understand how ANN models come to their conclusion and to understand what a model has learned. Here, we focus on Echo State Networks (ESNs) as a certain type of recurrent neural networks, also known as reservoir computing. ESNs are easy to train and only require a small number of trainable parameters, but are still black-box models. We show how LRP can be applied to ESNs in order to open the black-box. We also show how ESNs can be used not only for time series prediction but also for image classification: Our ESN model serves as a detector for El Nino Southern Oscillation (ENSO) from sea surface temperature anomalies. ENSO is actually a well-known problem and has been extensively discussed before. But here we use this simple problem to demonstrate how LRP can significantly enhance the explainablility of ESNs.

Auditing machine learning-based (ML) healthcare tools for bias is critical to preventing patient harm, especially in communities that disproportionately face health inequities. General frameworks are becoming increasingly available to measure ML fairness gaps between groups. However, ML for health (ML4H) auditing principles call for a contextual, patient-centered approach to model assessment. Therefore, ML auditing tools must be (1) better aligned with ML4H auditing principles and (2) able to illuminate and characterize communities vulnerable to the most harm. To address this gap, we propose supplementing ML4H auditing frameworks with SLOGAN (patient Severity-based LOcal Group biAs detectioN), an automatic tool for capturing local biases in a clinical prediction task. SLOGAN adapts an existing tool, LOGAN (LOcal Group biAs detectioN), by contextualizing group bias detection in patient illness severity and past medical history. We investigate and compare SLOGAN's bias detection capabilities to LOGAN and other clustering techniques across patient subgroups in the MIMIC-III dataset. On average, SLOGAN identifies larger fairness disparities in over 75% of patient groups than LOGAN while maintaining clustering quality. Furthermore, in a diabetes case study, health disparity literature corroborates the characterizations of the most biased clusters identified by SLOGAN. Our results contribute to the broader discussion of how machine learning biases may perpetuate existing healthcare disparities.

Variable selection problem for the nonlinear Cox regression model is considered. In survival analysis, one main objective is to identify the covariates that are associated with the risk of experiencing the event of interest. The Cox proportional hazard model is being used extensively in survival analysis in studying the relationship between survival times and covariates, where the model assumes that the covariate has a log-linear effect on the hazard function. However, this linearity assumption may not be satisfied in practice. In order to extract a representative subset of features, various variable selection approaches have been proposed for survival data under the linear Cox model. However, there exists little literature on variable selection for the nonlinear Cox model. To break this gap, we extend the recently developed deep learning-based variable selection model LassoNet to survival data. Simulations are provided to demonstrate the validity and effectiveness of the proposed method. Finally, we apply the proposed methodology to analyze a real data set on diffuse large B-cell lymphoma.

We propose and analyse a reduced-rank method for solving least-squares regression problems with infinite dimensional output. We derive learning bounds for our method, and study under which setting statistical performance is improved in comparison to full-rank method. Our analysis extends the interest of reduced-rank regression beyond the standard low-rank setting to more general output regularity assumptions. We illustrate our theoretical insights on synthetic least-squares problems. Then, we propose a surrogate structured prediction method derived from this reduced-rank method. We assess its benefits on three different problems: image reconstruction, multi-label classification, and metabolite identification.

We propose a decoding-based approach to detect context effects on neural codes in longitudinal neural recording data. The approach is agnostic to how information is encoded in neural activity, and can control for a variety of possible confounding factors present in the data. We demonstrate our approach by determining whether it is possible to decode location encoding from prefrontal cortex in the mouse and, further, testing whether the encoding changes due to task engagement.

Large-scale language models often learn behaviors that are misaligned with user expectations. Generated text may contain offensive or toxic language, contain significant repetition, or be of a different sentiment than desired by the user. We consider the task of unlearning these misalignments by fine-tuning the language model on signals of what not to do. We introduce Quantized Reward Konditioning (Quark), an algorithm for optimizing a reward function that quantifies an (un)wanted property, while not straying too far from the original model. Quark alternates between (i) collecting samples with the current language model, (ii) sorting them into quantiles based on reward, with each quantile identified by a reward token prepended to the language model's input, and (iii) using a standard language modeling loss on samples from each quantile conditioned on its reward token, while remaining nearby the original language model via a KL-divergence penalty. By conditioning on a high-reward token at generation time, the model generates text that exhibits less of the unwanted property. For unlearning toxicity, negative sentiment, and repetition, our experiments show that Quark outperforms both strong baselines and state-of-the-art reinforcement learning methods like PPO (Schulman et al. 2017), while relying only on standard language modeling primitives.

The t-distributed stochastic neighbor embedding (t- SNE) is a method for interpreting high dimensional (HD) data by mapping each point to a low dimensional (LD) space (usually two-dimensional). It seeks to retain the structure of the data. An important component of the t-SNE algorithm is the initialization procedure, which begins with the random initialization of an LD vector. Points in this initial vector are then updated to minimize the loss function (the KL divergence) iteratively using gradient descent. This leads comparable points to attract one another while pushing dissimilar points apart. We believe that, by default, these algorithms should employ some form of informative initialization. Another essential component of the t-SNE is using a kernel matrix, a similarity matrix comprising the pairwise distances among the sequences. For t-SNE-based visualization, the Gaussian kernel is employed by default in the literature. However, we show that kernel selection can also play a crucial role in the performance of t-SNE. In this work, we assess the performance of t-SNE with various alternative initialization methods and kernels, using four different sets, out of which three are biological sequences (nucleotide, protein, etc.) datasets obtained from various sources, such as the well-known GISAID database for sequences of the SARS- CoV-2 virus. We perform subjective and objective assessments of these alternatives. We use the resulting t-SNE plots and k- ary neighborhood agreement (k-ANA) to evaluate and compare the proposed methods with the baselines. We show that by using different techniques, such as informed initialization and kernel matrix selection, that t-SNE performs significantly better. Moreover, we show that t-SNE also takes fewer iterations to converge faster with more intelligent initialization.

In this paper, we revisit and improve the convergence of policy gradient (PG), natural PG (NPG) methods, and their variance-reduced variants, under general smooth policy parametrizations. More specifically, with the Fisher information matrix of the policy being positive definite: i) we show that a state-of-the-art variance-reduced PG method, which has only been shown to converge to stationary points, converges to the globally optimal value up to some inherent function approximation error due to policy parametrization; ii) we show that NPG enjoys a lower sample complexity; iii) we propose SRVR-NPG, which incorporates variance-reduction into the NPG update. Our improvements follow from an observation that the convergence of (variance-reduced) PG and NPG methods can improve each other: the stationary convergence analysis of PG can be applied to NPG as well, and the global convergence analysis of NPG can help to establish the global convergence of (variance-reduced) PG methods. Our analysis carefully integrates the advantages of these two lines of works. Thanks to this improvement, we have also made variance-reduction for NPG possible, with both global convergence and an efficient finite-sample complexity.

Nonlinear dimensionality reduction methods are ubiquitously applied for visualization and preprocessing highdimensional data in machine learning [1, 2, 3, 4, 5, 6, 7, 8]. These methods assume that the intrinsic dimension of the underlying manifold is much lower than the ambient dimension of the real-world data [9, 10, 11]. Based on approximating the manifold by k nearest neighbour (kNN) graph, nonlinear dimensionality reduction projects data from high to low-dimensional space and retains the topological structure of original data. While nonlinear dimensionality reduction is effective for visualizing high-dimensional data, one major weakness is lacking interpretability of the reduced-dimension results [8]. The reduced dimensions of nonlinear dimensionality reduction have no specific meaning, compared with linear methods like Principal Component Analysis (PCA) where the dimensions of the embedding space represent the directions of the largest variance of original data. Particularly, nonlinear dimensionality reduction focuses on preserving distance between observations and thereby loses source feature information in the embedding space, resulting in failing to illustrate feature loadings that linear methods such as PCA can provide to explain the feature contribution in each dimension. In this paper, we seek to improve the interpretability of nonlinear dimensionality reduction. In addition to preserving the local topological structure between observations in the embedding space, we aim to incorporate the source features to devise an interpretable nonlinear dimensionality reduction method. The feature information is encoded in the column space of data, and we use the tangent space to locally depict the column space [12, 13].