Rahi Navelkar, Andrea Cosolo, Iago Maceda Porto, Bogdan Bintu, Yubao Cheng, Vincent Gardeux, Silvia Gutnik, Taihei Fujimori 等 40 位作者
In recent years, multiplexed Fluorescence In Situ Hybridization (FISH) or FISH-omics methods have rapidly expanded, enabling the quantification of chromatin organization in single cells, often in conjunction with measurements of RNAs and proteins. These approaches have deepened our understanding of how 3D chromosome architecture relates to transcriptional activity and cell states in health and disease. Despite these advances, results from Chromatin Tracing FISH-omics experiments remain challenging to share, reuse, and analyze due to the absence of standardized data exchange specifications. Building on the release of microscopy metadata standards, we introduce the FISH Omics Format-Chromatin Tracing (FOF-CT), a community-developed standard for processed results from diverse imaging modalities. We describe the FOF-CT file format and present a curated collection of datasets deposited in the 4D Nucleome Data Portal and the OME Image Data Resource (IDR). We also highlight their potential for reuse, integration, and modeling by outlining example analysis pipelines and illustrating biological insights enabled by standardized, FAIR-compliant Chromatin Tracing datasets. FOF-CT natively represents both ball-and-stick and volumetric Chromatin Tracing data, unifying the two modalities within a single, modular table-based architecture (FOF-bas-CT and FOF-vol-CT, respectively).
Xiaowei Zhu, Yubing Ren Institute of Information Engineering, Chinese Academy of Sciences, Fang Fang Institute of Information Engineering,Chinese Academy of Sciences, Shi Wang Chinese Academy of Sciences, Yanan Cao Institute of Information Engineering, Chinese Academy of Sciences, Li Guo Institute of Information Engineering, Chinese Academy of Sciences
The rapid advancement of large language models has increasingly blurred the boundary between human-written and AI-generated text, raising societal risks such as misinformation dissemination, authorship ambiguity, and threats to intellectual property rights. These concerns highlight the urgent need for effective and reliable detection methods. While existing training-free approaches often achieve strong performance by aggregating token-level signals into a global score, they typically assume uniform token contributions, making them less robust under short sequences or localized token modifications. To address these limitations, we propose Exons-Detect, a training-free method for AI-generated text detection based on an exon-aware token reweighting perspective. Exons-Detect identifies and amplifies informative exonic tokens by measuring hidden-state discrepancy under a dual-model setting, and computes an interpretable translation score from the resulting importance-weighted token sequence. Empirical evaluations demonstrate that Exons-Detect achieves state-of-the-art detection performance and exhibits strong robustness to adversarial attacks and varying input lengths. In particular, it attains a 2.2% relative improvement in average AUROC over the strongest prior baseline on DetectRL.
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cs.CL
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表
Shei Pern Chua, Zhen Leng Thai, Kai Jun Teh, Xiao Li, Qibing Ren Shanghai Jiaotong University, Xiaolin Hu Tsinghua University, Tsinghua University
Large Language Model safety alignment predominantly operates on a binary assumption that requests are either safe or unsafe. This classification proves insufficient when models encounter ethical dilemmas, where the capacity to reason through moral trade-offs creates a distinct attack surface. We formalize this vulnerability through TRIAL, a multi-turn red-teaming methodology that embeds harmful requests within ethical framings. TRIAL achieves consistently high attack success rates across models by exploiting the model’s own ethical reasoning to frame harmful actions as morally necessary compromises. Building on these insights, we introduce ERR (Ethical Reasoning Robustness), a defense framework that distinguishes between instrumental responses that enable harmful outcomes and explanatory responses that analyze ethical frameworks without endorsing harmful acts. ERR employs a Layer-Stratified Harm-Gated LoRA architecture, achieving robust defense against reasoning-based attacks while preserving model utility.
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cs.CL
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表