Advancements in AI for science unlocks capabilities for critical drug discovery tasks such as protein-ligand binding affinity prediction. However, current models overfit to existing oversimplified datasets that does not represent naturally occurring and biologically relevant proteins with modifications. In this work, we curate a complete and modification-aware version of the widely used DAVIS dataset by incorporating 4,032 kinase-ligand pairs involving substitutions, insertions, deletions, and phosphorylation events. This enriched dataset enables benchmarking of predictive models under biologically realistic conditions. Based on this new dataset, we propose three benchmark settings--Augmented Dataset Prediction, Wild-Type to Modification Generalization, and Few-Shot Modification Generalization--designed to assess model robustness in the presence of protein modifications. Through extensive evaluation of both docking-free and docking-based methods, we find that docking-based model generalize better in zero-shot settings. In contrast, docking-free models tend to overfit to wild-type proteins and struggle with unseen modifications but show notable improvement when fine-tuned on a small set of modified examples. We anticipate that the curated dataset and benchmarks offer a valuable foundation for developing models that better generalize to protein modifications, ultimately advancing precision medicine in drug discovery.

The progress of composed image retrieval (CIR), a popular research direction in image retrieval, where a combined visual and textual query is used, is held back by the absence of high-quality training and evaluation data. We introduce a new evaluation dataset, i-CIR, which, unlike existing datasets, focuses on an instancelevel class definition. The goal is to retrieve images that contain the same particular object as the visual query, presented under a variety of modifications defined by textual queries. Its design and curation process keep the dataset compact to facilitate future research, while maintaining its challenge--comparable to retrieval among more than 40M random distractors--through a semi-automated selection of hard negatives.

Oligonucleotide therapeutics offer great potential to address previously undruggable targets and enable personalized medicine. However, their progress is often hindered by insufficient safety and efficacy profiles. Predictive modeling and machine learning could significantly accelerate oligonucleotide drug discovery by identifying suboptimal compounds early on, but their application in this area lags behind other modalities. A key obstacle to the adoption of machine learning in the field is the scarcity of readily accessible and standardized datasets for model development, as data are often scattered across diverse experiments with inconsistent molecular representations. To overcome this challenge, we introduce OligoGym, a curated collection of standardized, machine learning-ready datasets encompassing various oligonucleotide therapeutic modalities and endpoints. We used OligoGym to benchmark diverse classical and deep learning methods, establishing performance baselines for each dataset across different featurization techniques, model configurations, and splitting strategies. Our work represents a crucial first step in creating a more unified framework for oligonucleotide therapeutic dataset generation and model training.

Out-of-tree kernel patches are essential for adapting the Linux kernel to new hardware or enabling specific functionalities. Maintaining and updating these patches across different kernel versions demands significant effort from experienced engineers. Large language models (LLMs) have shown remarkable progress across various domains, suggesting their potential for automating out-of-tree kernel patch migration. However, our findings reveal that LLMs, while promising, struggle with incomplete code context understanding and inaccurate migration point identification. In this work, we propose MIGGPT, a framework that employs a novel code fingerprint structure to retain code snippet information and incorporates three meticulously designed modules to improve the migration accuracy and efficiency of out-of-tree kernel patches. Furthermore, we establish a robust benchmark using real-world out-of-tree kernel patch projects to evaluate LLM capabilities. Evaluations show that MIGGPT significantly outperforms the direct application of vanilla LLMs, achieving an average completion rate of 74.07%

Text-guided image editing has been allowing users to transform and synthesize images through natural language instructions, offering considerable flexibility. However, most existing image editing models naively attempt to follow all user instructions, even if those instructions are inherently infeasible or contradictory, often resulting in nonsensical output. To address these challenges, we propose a contextaware method for image editing named as CAMILA (Context-Aware Masking for Image Editing with Language Alignment). CAMILA is designed to validate the contextual coherence between instructions and the image, ensuring that only relevant edits are applied to the designated regions while ignoring non-executable instructions. For comprehensive evaluation of this new method, we constructed datasets for both single-and multi-instruction image editing, incorporating the presence of infeasible requests. Our method achieves better performance and higher semantic alignment than state-of-the-art models, demonstrating its effectiveness in handling complex instruction challenges while preserving image integrity.

The feedback that AI systems (e.g., recommender systems, chatbots) collect from user interactions is a crucial source of training data. While short-term feedback (e.g., clicks, engagement) is widely used for training, there is ample evidence that optimizing short-term feedback does not necessarily achieve the desired long-term objectives. Unfortunately, directly optimizing for long-term objectives is challenging, and we identify the disconnect in the timescales of short-term interventions (e.g., rankings) and the long-term feedback (e.g., user retention) as one of the key obstacles. To overcome this disconnect, we introduce the framework of MultiScale Policy Learning to contextually reconcile that AI systems need to act and optimize feedback at multiple interdependent timescales. Following a PAC-Bayes motivation, we show how the lower timescales with more plentiful data can provide a data-dependent hierarchical prior for faster learning at higher scales, where data is more scarce.

Advancements in AI for science unlocks capabilities for critical drug discovery tasks such as protein-ligand binding affinity prediction. However, current models overfit to existing oversimplified datasets that does not represent naturally occurring and biologically relevant proteins with modifications. In this work, we curate a complete and modification-aware version of the widely used DAVIS dataset by incorporating 4,032 kinase-ligand pairs involving substitutions, insertions, deletions, and phosphorylation events. This enriched dataset enables benchmarking of predictive models under biologically realistic conditions. Based on this new dataset, we propose three benchmark settings--Augmented Dataset Prediction, Wild-Type to Modification Generalization, and Few-Shot Modification Generalization--designed to assess model robustness in the presence of protein modifications. Through extensive evaluation of both docking-free and docking-based methods, we find that docking-based model generalize better in zero-shot settings. In contrast, docking-free models tend to overfit to wild-type proteins and struggle with unseen modifications but show notable improvement when fine-tuned on a small set of modified examples. We anticipate that the curated dataset and benchmarks offer a valuable foundation for developing models that better generalize to protein modifications, ultimately advancing precision medicine in drug discovery.

Vector databases support machine learning tasks using Approximate Nearest Neighbour (ANN) query functionality, making them highly valuable digital assets. However, they also face security threats like unauthorized replication. By embedding stealth information, watermarking technology can be used for ownership authentication. This paper introduces a watermarking scheme specifically designed for vector databases. The scheme consists of four steps: generating identifiers, grouping, cryptographic mapping, and modification.

We audit alignment-induced shifts in residual-stream activations of three open-weight instruction-tuned LLMs (Llama-3.1-8B-Instruct, Gemma-2-9B-it, Qwen-2.5-7B-Instruct) using the effective rank of the alignment modification matrix on safety-relevant inputs, rho_eps := rank_eps(M_Ds)/d, which formalizes the single-refusal-direction observation of Arditi et al. (2024) as a continuous quantity. The paper has three contributions. (1) Confound-controlled measurement: a four-variant decomposition (M_naive, M_template, M_aligned, M_DiD) separates chat-template formatting, alignment-stage shift, and the refusal-mediating direction, and recovers the Arditi refusal direction on M_DiD at |cos| in {0.77, 0.86, 0.50} (Llama/Gemma/Qwen); chat-template-controlled rho_eps is {0.0029, 0.0048, 0.0044}, and the centered SVD residual is 4-7x larger. (2) Constructive calibration on a 3-layer MLP across rho_eps in {0.008, 0.17, 0.33, 0.40} exhibits a sweet-spot vs. brittle distinction: mild rank-maximization (lambda=5) buys ablation robustness, while strong regularization at the same nominal rho_eps (lambda=50) does not. rho_eps is a diagnostic for fragility, not a target whose mechanical inflation buys robustness. (3) Limits of rank-based diagnostics: (a) not safety-specific (LRH baseline is 2-3x the safety value); (b) SVD principal ordering does not match causal ordering (Llama u_2 inert despite ranking second; cumulative ablation non-monotone at k=5); (c) the spectral-gap hypothesis required to upgrade the O(rho_eps * d) achievability bound to a matching Mirsky-route lower bound fails empirically (1/90 Llama layer-reference pairs, 0/36 MLP combinations) and structurally (kappa_lb <= 2/(eps * r)). The matching lower bound remains an open problem.

We derive a Sequential Minimal Optimization (SMO) algorithm for the quadratic dual problem arising from $\varepsilon$-SVR~\cite{Vapnik1995, Drucker1997, Smola2004} modified to minimize the Mean Absolute Percentage Error (MAPE)~\cite{Makridakis1993, Hyndman2006} directly in the loss function~\cite{benavides2025support}. This formulation is part of a broader family of SVR models with percentage-error losses that also includes least-squares variants~\cite{Suykens2002} and symmetric-kernel extensions~\cite{Espinoza2005}, whose unified structure is studied in~\cite{benavides2026unified}. The key structural difference from standard $\varepsilon$-SVR is that the box constraints become \emph{sample-dependent}: $α_k, α_k^* \in [0,\, 100C/y_k]$. We show that this modification affects only (i) the feasibility sets $\Iup$ and $\Idown$ in the working-set selection and (ii) the clipping bounds in the analytic two-variable update, while leaving the curvature formula and gradient update structurally identical to the standard SMO~\cite{Platt1998, Platt1999, Fan2005}. A shrinking heuristic adapted to the sample-dependent bounds is derived and shown to introduce an asymmetry between $α$- and $α^*$-variables controlled by the gap $2y_k\varepsilon/100$. The same solver applies to the symmetric-kernel variant (m2) by replacing $Ω$ with $Ω_s = \tfrac{1}{2}(Ω+ aΩ^*)$~\cite{Espinoza2005}. Numerical validation against an interior-point QP reference solver confirms solution agreement to within solver termination tolerance across ten synthetic configurations spanning both kernel variants and symmetry types. An implementation is available in the open-source \texttt{psvr} R package~\cite{BenavidesHerrera2026Rpsvr}.