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SynLeaF: A Dual-Stage Multimodal Fusion Framework for Synthetic Lethality Prediction Across Pan- and Single-Cancer Contexts

arXiv:2603.22369v1 Announce Type: cross Abstract: Accurate prediction of synthetic lethality (SL) is important for guiding the development of cancer drugs and therapies. SL prediction faces significant challenges in the effective fusion of heterogeneous multi-source data. Existing multimodal methods often suffer from "modality laziness" due to disparate convergence speeds, which hinders the exploitation of complementary information. This is also one reason why most existing SL prediction models cannot perform well on both pan-cancer and single-cancer SL pair prediction. In this study, we propose SynLeaF, a dual-stage multimodal fusion framework for SL prediction across pan- and single-cancer contexts. The framework employs a VAE-based cross-encoder with a product of experts mechanism to fuse four omics data types (gene expression, mutation, methylation, and CNV), while simultaneously utilizing a relational graph convolutional network to capture structured gene representations from biomedical knowledge graphs. To mitigate modality laziness, SynLeaF introduces a dual-stage training mechanism employing featurelevel knowledge distillation with adaptive uni-modal teacher and ensemble strategies. In extensive experiments across eight specific cancer types and a pancancer dataset, SynLeaF achieves superior performance in 17 out of 19 scenarios. Ablation studies and gradient analyses further validate the critical contributions of the proposed fusion and distillation mechanisms to model robustness and generalization. To facilitate community use, a web server is available at https://synleaf.bioinformatics-lilab.cn.

Think Before You Drive: World Model-Inspired Multimodal Grounding for Autonomous Vehicles

arXiv:2512.03454v3 Announce Type: replace-cross Abstract: Interpreting natural-language commands to localize target objects is critical for autonomous driving (AD). Existing visual grounding (VG) methods for autonomous vehicles (AVs) typically struggle with ambiguous, context-dependent instructions, as they lack reasoning over 3D spatial relations and anticipated scene evolution. Grounded in the principles of world models, we propose ThinkDeeper, a framework that reasons about future spatial states before making grounding decisions. At its core is a Spatial-Aware World Model (SA-WM) that learns to reason ahead by distilling the current scene into a command-aware latent state and rolling out a sequence of future latent states, providing forward-looking cues for disambiguation. Complementing this, a hypergraph-guided decoder then hierarchically fuses these states with the multimodal input, capturing higher-order spatial dependencies for robust localization. In addition, we present DrivePilot, a multi-source VG dataset in AD, featuring semantic annotations generated by a Retrieval-Augmented Generation (RAG) and Chain-of-Thought (CoT)-prompted LLM pipeline. Extensive evaluations on six benchmarks, ThinkDeeper ranks #1 on the Talk2Car leaderboard and surpasses state-of-the-art baselines on DrivePilot, MoCAD, and RefCOCO/+/g benchmarks. Notably, it shows strong robustness and efficiency in challenging scenes (long-text, multi-agent, ambiguity) and retains superior performance even when trained on 50% of the data.

Sustained nitric oxide production by engineered <i>E. coli</i> remodels the tumor microenvironment and potentiates immunotherapy

Nature Biotechnology, Published online: 18 March 2026; doi:10.1038/s41587-026-03054-y

Solid tumors are sensitized to anti‑PD‑L1 immunotherapy by engineered E. coli to produce nitric oxide.

Escaping the BLEU Trap: A Signal-Grounded Framework with Decoupled Semantic Guidance for EEG-to-Text Decoding

arXiv:2603.03312v1 Announce Type: cross Abstract: Decoding natural language from non-invasive EEG signals is a promising yet challenging task. However, current state-of-the-art models remain constrained by three fundamental limitations: Semantic Bias (mode collapse into generic templates), Signal Neglect (hallucination based on linguistic priors rather than neural inputs), and the BLEU Trap, where evaluation metrics are artificially inflated by high-frequency stopwords, masking a lack of true semantic fidelity. To address these challenges, we propose SemKey, a novel multi-stage framework that enforces signal-grounded generation through four decoupled semantic objectives: sentiment, topic, length, and surprisal. We redesign the interaction between the neural encoder and the Large Language Model (LLM) by injecting semantic prompts as Queries and EEG embeddings as Key-Value pairs, strictly forcing the model to attend to neural inputs. Furthermore, we move beyond standard translation metrics by adopting N-way Retrieval Accuracy and Fr\'echet Distance to rigorously assess diversity and alignment. Extensive experiments demonstrate that our approach effectively eliminates hallucinations on noise inputs and achieves SOTA performance on these robust protocols. Code will be released upon acceptance at https://github.com/xmed-lab/SemKey.

Confidence-Calibrated Small-Large Language Model Collaboration for Cost-Efficient Reasoning

arXiv:2603.03752v1 Announce Type: cross Abstract: Large language models (LLMs) demonstrate superior reasoning capabilities compared to small language models (SLMs), but incur substantially higher costs. We propose COllaborative REAsoner (COREA), a system that cascades an SLM with an LLM to achieve a balance between accuracy and cost in complex reasoning tasks. COREA first attempts to answer questions using the SLM, which outputs both an answer and a verbalized confidence score. Questions with confidence below a predefined threshold are deferred to the LLM for more accurate resolution. We introduce a reinforcement learning-based training algorithm that aligns the SLM's confidence through an additional confidence calibration reward. Extensive experiments demonstrate that our method jointly improves the SLM's reasoning ability and confidence calibration across diverse datasets and model backbones. Compared to using the LLM alone, COREA reduces cost by 21.5% and 16.8% on out-of-domain math and non-math datasets, respectively, with only an absolute pass@1 drop within 2%.

Efficient Point Cloud Processing with High-Dimensional Positional Encoding and Non-Local MLPs

arXiv:2603.04099v1 Announce Type: cross Abstract: Multi-Layer Perceptron (MLP) models are the foundation of contemporary point cloud processing. However, their complex network architectures obscure the source of their strength and limit the application of these models. In this article, we develop a two-stage abstraction and refinement (ABS-REF) view for modular feature extraction in point cloud processing. This view elucidates that whereas the early models focused on ABS stages, the more recent techniques devise sophisticated REF stages to attain performance advantages. Then, we propose a High-dimensional Positional Encoding (HPE) module to explicitly utilize intrinsic positional information, extending the ``positional encoding'' concept from Transformer literature. HPE can be readily deployed in MLP-based architectures and is compatible with transformer-based methods. Within our ABS-REF view, we rethink local aggregation in MLP-based methods and propose replacing time-consuming local MLP operations, which are used to capture local relationships among neighbors. Instead, we use non-local MLPs for efficient non-local information updates, combined with the proposed HPE for effective local information representation. We leverage our modules to develop HPENets, a suite of MLP networks that follow the ABS-REF paradigm, incorporating a scalable HPE-based REF stage. Extensive experiments on seven public datasets across four different tasks show that HPENets deliver a strong balance between efficiency and effectiveness. Notably, HPENet surpasses PointNeXt, a strong MLP-based counterpart, by 1.1% mAcc, 4.0% mIoU, 1.8% mIoU, and 0.2% Cls. mIoU, with only 50.0%, 21.5%, 23.1%, 44.4% of FLOPs on ScanObjectNN, S3DIS, ScanNet, and ShapeNetPart, respectively. Source code is available at https://github.com/zouyanmei/HPENet_v2.git.

CosyAccent: Duration-Controllable Accent Normalization Using Source-Synthesis Training Data

arXiv:2602.19166v1 Announce Type: cross Abstract: Accent normalization (AN) systems often struggle with unnatural outputs and undesired content distortion, stemming from both suboptimal training data and rigid duration modeling. In this paper, we propose a "source-synthesis" methodology for training data construction. By generating source L2 speech and using authentic native speech as the training target, our approach avoids learning from TTS artifacts and, crucially, requires no real L2 data in training. Alongside this data strategy, we introduce CosyAccent, a non-autoregressive model that resolves the trade-off between prosodic naturalness and duration control. CosyAccent implicitly models rhythm for flexibility yet offers explicit control over total output duration. Experiments show that, despite being trained without any real L2 speech, CosyAccent achieves significantly improved content preservation and superior naturalness compared to strong baselines trained on real-world data.

OmniScience: A Large-scale Multi-modal Dataset for Scientific Image Understanding

arXiv:2602.13758v1 Announce Type: cross Abstract: Multimodal Large Language Models demonstrate strong performance on natural image understanding, yet exhibit limited capability in interpreting scientific images, including but not limited to schematic diagrams, experimental characterizations, and analytical charts. This limitation is particularly pronounced in open-source MLLMs. The gap largely stems from existing datasets with limited domain coverage, coarse structural annotations, and weak semantic grounding. We introduce OmniScience, a large-scale, high-fidelity multi-modal dataset comprising 1.5 million figure-caption-context triplets, spanning more than 10 major scientific disciplines. To obtain image caption data with higher information density and accuracy for multi-modal large-model training, we develop a dynamic model-routing re-captioning pipeline that leverages state-of-the-art multi-modal large language models to generate dense, self-contained descriptions by jointly synthesizing visual features, original figure captions, and corresponding in-text references authored by human scientists. The pipeline is further reinforced with rigorous quality filtering and alignment with human expert judgments, ensuring both factual accuracy and semantic completeness, and boosts the image-text multi-modal similarity score from 0.769 to 0.956. We further propose a caption QA protocol as a proxy task for evaluating visual understanding. Under this setting, Qwen2.5-VL-3B model finetuned on OmniScience show substantial gains over baselines, achieving a gain of 0.378 on MM-MT-Bench and a gain of 0.140 on MMMU.
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