Measurement and analysis of high energetic particles for scientific, medical or industrial applications is a complex procedure, requiring the design of sophisticated detector and data processing systems. The development of adaptive and differentiable software pipelines using a combination of conventional and machine learning algorithms is therefore getting ever more important to optimize and operate the system efficiently while maintaining end-to-end (E2E) differentiability. We propose for the application of charged particle tracking an E2E differentiable decision-focused learning scheme using graph neural networks with combinatorial components solving a linear assignment problem for each detector layer. We demonstrate empirically that including differentiable variations of discrete assignment operations allows for efficient network optimization, working better or on par with approaches that lack E2E differentiability. In additional studies, we dive deeper into the optimization process and provide further insights from a loss landscape perspective. We demonstrate that while both methods converge into similar performing, globally well-connected regions, they suffer under substantial predictive instability across initialization and optimization methods, which can have unpredictable consequences on the performance of downstream tasks such as image reconstruction. We also point out a dependency between the interpolation factor of the gradient estimator and the prediction stability of the model, suggesting the choice of sufficiently small values. Given the strong global connectivity of learned solutions and the excellent training performance, we argue that E2E differentiability provides, besides the general availability of gradient information, an important tool for robust particle tracking to mitigate prediction instabilities by favoring solutions that perform well on downstream tasks.

We present a detailed study of surrogate losses and algorithms for multi-label learning, supported by $H$-consistency bounds. We first show that, for the simplest form of multi-label loss (the popular Hamming loss), the well-known consistent binary relevance surrogate suffers from a sub-optimal dependency on the number of labels in terms of $H$-consistency bounds, when using smooth losses such as logistic losses. Furthermore, this loss function fails to account for label correlations. To address these drawbacks, we introduce a novel surrogate loss, multi-label logistic loss, that accounts for label correlations and benefits from label-independent $H$-consistency bounds. We then broaden our analysis to cover a more extensive family of multi-label losses, including all common ones and a new extension defined based on linear-fractional functions with respect to the confusion matrix. We also extend our multi-label logistic losses to more comprehensive multi-label comp-sum losses, adapting comp-sum losses from standard classification to the multi-label learning. We prove that this family of surrogate losses benefits from $H$-consistency bounds, and thus Bayes-consistency, across any general multi-label loss. Our work thus proposes a unified surrogate loss framework benefiting from strong consistency guarantees for any multi-label loss, significantly expanding upon previous work which only established Bayes-consistency and for specific loss functions. Additionally, we adapt constrained losses from standard classification to multi-label constrained losses in a similar way, which also benefit from $H$-consistency bounds and thus Bayes-consistency for any multi-label loss. We further describe efficient gradient computation algorithms for minimizing the multi-label logistic loss.

Source-Free domain adaptive Object Detection (SFOD) is a promising strategy for deploying trained detectors to new, unlabeled domains without accessing source data, addressing significant concerns around data privacy and efficiency. Most SFOD methods leverage a Mean-Teacher (MT) self-training paradigm relying heavily on High-confidence Pseudo Labels (HPL). However, these HPL often overlook small instances that undergo significant appearance changes with domain shifts. Additionally, HPL ignore instances with low confidence due to the scarcity of training samples, resulting in biased adaptation toward familiar instances from the source domain. To address this limitation, we introduce the Low-confidence Pseudo Label Distillation (LPLD) loss within the Mean-Teacher based SFOD framework. This novel approach is designed to leverage the proposals from Region Proposal Network (RPN), which potentially encompasses hard-to-detect objects in unfamiliar domains. Initially, we extract HPL using a standard pseudo-labeling technique and mine a set of Low-confidence Pseudo Labels (LPL) from proposals generated by RPN, leaving those that do not overlap significantly with HPL. These LPL are further refined by leveraging class-relation information and reducing the effect of inherent noise for the LPLD loss calculation. Furthermore, we use feature distance to adaptively weight the LPLD loss to focus on LPL containing a larger foreground area. Our method outperforms previous SFOD methods on four cross-domain object detection benchmarks. Extensive experiments demonstrate that our LPLD loss leads to effective adaptation by reducing false negatives and facilitating the use of domain-invariant knowledge from the source model. Code is available at https://github.com/junia3/LPLD.

In recent years, conventional chemistry techniques have faced significant challenges due to their inherent limitations, struggling to cope with the increasing complexity and volume of data generated in contemporary research endeavors. Computational methodologies represent robust tools in the field of chemistry, offering the capacity to harness potent machine-learning models to yield insightful analytical outcomes. This review delves into the spectrum of computational strategies available for natural product analysis and constructs a research framework for investigating both qualitative and quantitative chemistry problems. Our objective is to present a novel perspective on the symbiosis of machine learning and chemistry, with the potential to catalyze a transformation in the field of natural product analysis.

With the widespread adoption of Large Language Models (LLMs), concerns about potential misuse have emerged. To this end, watermarking has been adapted to LLM, enabling a simple and effective way to detect and monitor generated text. However, while the existing methods can differentiate between watermarked and unwatermarked text with high accuracy, they often face a trade-off between the quality of the generated text and the effectiveness of the watermarking process. In this work, we present a novel type of LLM watermark, Sparse Watermark, which aims to mitigate this trade-off by applying watermarks to a small subset of generated tokens distributed across the text. The key strategy involves anchoring watermarked tokens to words that have specific Part-of-Speech (POS) tags.

Existing models rely heavily on internet-crawled data, wherein problematic concepts persist due to incomplete filtration processes. While previous approaches somewhat alleviate the issue, they often rely on text-specified concepts, introducing challenges in accurately capturing nuanced concepts and aligning model knowledge with human understandings. In response, we propose a framework named Human Feedback Inversion (HFI), where human feedback on model-generated images is condensed into textual tokens guiding the mitigation or removal of problematic images. The proposed framework can be built upon existing techniques for the same purpose, enhancing their alignment with human judgment. By doing so, we simplify the training objective with a self-distillation-based technique, providing a strong baseline for concept removal. Our experimental results demonstrate our framework significantly reduces objectionable content generation while preserving image quality, contributing to the ethical deployment of AI in the public sphere.

Clinical trials need to recruit a sufficient number of volunteer patients to demonstrate the statistical power of the treatment (e.g., a new drug) in curing a certain disease. Clinical trial recruitment has a significant impact on trial success. Forecasting whether the recruitment process would be successful before we run the trial would save many resources and time. This paper develops a novel deep & cross network with large language model (LLM)-augmented text feature that learns semantic information from trial eligibility criteria and predicts enrollment success. The proposed method enables interpretability by understanding which sentence/word in eligibility criteria contributes heavily to prediction. We also demonstrate the empirical superiority of the proposed method (0.7002 PR-AUC) over a bunch of well-established machine learning methods. The code and curated dataset are publicly available at https://anonymous.4open.science/r/TrialEnroll-7E12.

Video generation models (VGMs) have demonstrated the capability to synthesize high-quality output. It is important to understand their potential to produce unsafe content, such as violent or terrifying videos. In this work, we provide a comprehensive understanding of unsafe video generation. First, to confirm the possibility that these models could indeed generate unsafe videos, we choose unsafe content generation prompts collected from 4chan and Lexica, and three open-source SOTA VGMs to generate unsafe videos. After filtering out duplicates and poorly generated content, we created an initial set of 2112 unsafe videos from an original pool of 5607 videos. Through clustering and thematic coding analysis of these generated videos, we identify 5 unsafe video categories: Distorted/Weird, Terrifying, Pornographic, Violent/Bloody, and Political. With IRB approval, we then recruit online participants to help label the generated videos. Based on the annotations submitted by 403 participants, we identified 937 unsafe videos from the initial video set. With the labeled information and the corresponding prompts, we created the first dataset of unsafe videos generated by VGMs. We then study possible defense mechanisms to prevent the generation of unsafe videos. Existing defense methods in image generation focus on filtering either input prompt or output results. We propose a new approach called Latent Variable Defense (LVD), which works within the model's internal sampling process. LVD can achieve 0.90 defense accuracy while reducing time and computing resources by 10x when sampling a large number of unsafe prompts.

Gram staining has been one of the most frequently used staining protocols in microbiology for over a century, utilized across various fields, including diagnostics, food safety, and environmental monitoring. Its manual procedures make it vulnerable to staining errors and artifacts due to, e.g., operator inexperience and chemical variations. Here, we introduce virtual Gram staining of label-free bacteria using a trained deep neural network that digitally transforms darkfield images of unstained bacteria into their Gram-stained equivalents matching brightfield image contrast. After a one-time training effort, the virtual Gram staining model processes an axial stack of darkfield microscopy images of label-free bacteria (never seen before) to rapidly generate Gram staining, bypassing several chemical steps involved in the conventional staining process. We demonstrated the success of the virtual Gram staining workflow on label-free bacteria samples containing Escherichia coli and Listeria innocua by quantifying the staining accuracy of the virtual Gram staining model and comparing the chromatic and morphological features of the virtually stained bacteria against their chemically stained counterparts. This virtual bacteria staining framework effectively bypasses the traditional Gram staining protocol and its challenges, including stain standardization, operator errors, and sensitivity to chemical variations.

Security operation centers contend with a constant stream of security incidents, ranging from straightforward to highly complex. To address this, we developed Copilot Guided Response (CGR), an industry-scale ML architecture that guides security analysts across three key tasks -- (1) investigation, providing essential historical context by identifying similar incidents; (2) triaging to ascertain the nature of the incident -- whether it is a true positive, false positive, or benign positive; and (3) remediation, recommending tailored containment actions. CGR is integrated into the Microsoft Defender XDR product and deployed worldwide, generating millions of recommendations across thousands of customers. Our extensive evaluation, incorporating internal evaluation, collaboration with security experts, and customer feedback, demonstrates that CGR delivers high-quality recommendations across all three tasks. We provide a comprehensive overview of the CGR architecture, setting a precedent as the first cybersecurity company to openly discuss these capabilities in such depth. Additionally, we GUIDE, the largest public collection of real-world security incidents, spanning 13M evidences across 1M annotated incidents. By enabling researchers and practitioners to conduct research on real-world data, GUIDE advances the state of cybersecurity and supports the development of next-generation machine learning systems.