Retrieval-augmented language models (LMs) use non-parametric memory to substantially outperform their non-retrieval counterparts on perplexity-based evaluations, but it is an open question whether they achieve similar gains in few- and zero-shot end-task accuracy. We extensively study one such model, the k-nearest neighbor LM (kNN-LM), showing that the gains marginally transfer. The main challenge is to achieve coverage of the verbalizer tokens that define the different end-task class labels. To address this challenge, we also introduce kNN-Prompt, a simple and effective kNN-LM with automatically expanded fuzzy verbalizers (e.g. to expand terrible to also include silly and other task-specific synonyms for sentiment classification). Across nine diverse end-tasks, using kNN-Prompt with GPT-2 large yields significant performance boosts over strong zero-shot baselines (13.4% absolute improvement over the base LM on average). We also show that other advantages of non-parametric augmentation hold for end tasks; kNN-Prompt is effective for domain adaptation with no further training, and gains increase with the size of the retrieval model.

Machine learning (ML) is becoming increasingly crucial in many fields of engineering but has not yet played out its full potential in bioprocess engineering. While experimentation has been accelerated by increasing levels of lab automation, experimental planning and data modeling are still largerly depend on human intervention. ML can be seen as a set of tools that contribute to the automation of the whole experimental cycle, including model building and practical planning, thus allowing human experts to focus on the more demanding and overarching cognitive tasks. First, probabilistic programming is used for the autonomous building of predictive models. Second, machine learning automatically assesses alternative decisions by planning experiments to test hypotheses and conducting investigations to gather informative data that focus on model selection based on the uncertainty of model predictions. This review provides a comprehensive overview of ML-based automation in bioprocess development. On the one hand, the biotech and bioengineering community should be aware of the potential and, most importantly, the limitation of existing ML solutions for their application in biotechnology and biopharma. On the other hand, it is essential to identify the missing links to enable the easy implementation of ML and Artificial Intelligence (AI) tools in valuable solutions for the bio-community.

Traditionally source identification is solved using threshold based energy detection algorithms. These algorithms frequently sum up the activity in regions, and consider regions above a specific activity threshold to be sources. While these algorithms work for the majority of cases, they often fail to detect signals that occupy small frequency bands, fail to distinguish sources with overlapping frequency bands, and cannot detect any signals under a specified signal to noise ratio. Through the conversion of raw signal data to spectrogram, source identification can be framed as an object detection problem. By leveraging modern advancements in deep learning based object detection, we propose a system that manages to alleviate the failure cases encountered when using traditional source identification algorithms. Our contributions include framing source identification as an object detection problem, the publication of a spectrogram object detection dataset, and evaluation of the RetinaNet and YOLOv5 object detection models trained on the dataset. Our final models achieve Mean Average Precisions of up to 0.906. With such a high Mean Average Precision, these models are sufficiently robust for use in real world applications.

Analysis of the fairness of machine learning (ML) algorithms recently attracted many researchers' interest. Most ML methods show bias toward protected groups, which limits the applicability of ML models in many applications like crime rate prediction etc. Since the data may have missing values which, if not appropriately handled, are known to further harmfully affect fairness. Many imputation methods are proposed to deal with missing data. However, the effect of missing data imputation on fairness is not studied well. In this paper, we analyze the effect on fairness in the context of graph data (node attributes) imputation using different embedding and neural network methods. Extensive experiments on six datasets demonstrate severe fairness issues in missing data imputation under graph node classification. We also find that the choice of the imputation method affects both fairness and accuracy. Our results provide valuable insights into graph data fairness and how to handle missingness in graphs efficiently. This work also provides directions regarding theoretical studies on fairness in graph data.

The research field of Legal Natural Language Processing (NLP) has been very active recently, with Legal Judgment Prediction (LJP) becoming one of the most extensively studied tasks. To date, most publicly released LJP datasets originate from countries with civil law. In this work, we release, for the first time, a challenging LJP dataset focused on class action cases in the US. It is the first dataset in the common law system that focuses on the harder and more realistic task involving the complaints as input instead of the often used facts summary written by the court. Additionally, we study the difficulty of the task by collecting expert human predictions, showing that even human experts can only reach 53% accuracy on this dataset. Our Longformer model clearly outperforms the human baseline (63%), despite only considering the first 2,048 tokens. Furthermore, we perform a detailed error analysis and find that the Longformer model is significantly better calibrated than the human experts. Finally, we publicly release the dataset and the code used for the experiments.

Stochastic first-order methods such as Stochastic Extragradient (SEG) or Stochastic Gradient Descent-Ascent (SGDA) for solving smooth minimax problems and, more generally, variational inequality problems (VIP) have been gaining a lot of attention in recent years due to the growing popularity of adversarial formulations in machine learning. However, while high-probability convergence bounds are known to reflect the actual behavior of stochastic methods more accurately, most convergence results are provided in expectation. Moreover, the only known highprobability complexity results have been derived under restrictive sub-Gaussian (light-tailed) noise and bounded domain assumption [Juditsky et al., 2011a]. In this work, we prove the first high-probability complexity results with logarithmic dependence on the confidence level for stochastic methods for solving monotone and structured non-monotone VIPs with non-sub-Gaussian (heavy-tailed) noise and unbounded domains. In the monotone case, our results match the best-known ones in the light-tails case [Juditsky et al., 2011a], and are novel for structured non-monotone problems such as negative comonotone, quasi-strongly monotone, and/or star-cocoercive ones. We achieve these results by studying SEG and SGDA with clipping. In addition, we numerically validate that the gradient noise of many practical GAN formulations is heavy-tailed and show that clipping improves the performance of SEG/SGDA.

Clinical notes are becoming an increasingly important data source for machine learning (ML) applications in healthcare. Prior research has shown that deploying ML models can perpetuate existing biases against racial minorities, as bias can be implicitly embedded in data. In this study, we investigate the level of implicit race information available to ML models and human experts and the implications of model-detectable differences in clinical notes. Our work makes three key contributions. First, we find that models can identify patient self-reported race from clinical notes even when the notes are stripped of explicit indicators of race. Second, we determine that human experts are not able to accurately predict patient race from the same redacted clinical notes. Finally, we demonstrate the potential harm of this implicit information in a simulation study, and show that models trained on these race-redacted clinical notes can still perpetuate existing biases in clinical treatment decisions.

This paper studies stochastic control problems with the action space taken to be the space of measures, regularized by the relative entropy. We identify suitable metric space on which we construct a gradient flow for the measure-valued control process along which the cost functional is guaranteed to decrease. It is shown that any invariant measure of this gradient flow satisfies the Pontryagin optimality principle. If the problem we work with is sufficiently convex, the gradient flow converges exponentially fast. Furthermore, the optimal measure-valued control admits Bayesian interpretation which means that one can incorporate prior knowledge when solving stochastic control problem. This work is motivated by a desire to extend the theoretical underpinning for the convergence of stochastic gradient type algorithms widely used in the reinforcement learning community to solve control problems.

Food protein digestibility and bioavailability are critical aspects in addressing human nutritional demands, particularly when seeking sustainable alternatives to animal-based proteins. In this study, we propose a machine learning approach to predict the true ileal digestibility coefficient of food items. The model makes use of a unique curated dataset that combines nutritional information from different foods with FASTA sequences of some of their protein families. We extracted the biochemical properties of the proteins and combined these properties with embeddings from a Transformer-based protein Language Model (pLM). In addition, we used SHAP to identify features that contribute most to the model prediction and provide interpretability. This first AI-based model for predicting food protein digestibility has an accuracy of 90% compared to existing experimental techniques. With this accuracy, our model can eliminate the need for lengthy in-vivo or in-vitro experiments, making the process of creating new foods faster, cheaper, and more ethical.

Airline contexts include punctuality, food, comfort, entertainment, etc. An owner can determine which areas of his business need to be focused on by using this analysis. His priority would be the quality of food being served to customers if, for example, the most negative comments are about food. There are situations, however, in which business owners are uncertain. It is also possible to lack training data.