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Received — 17 March 2026 ⏭

Towards unified brain-to-text decoding across speech production and perception

✇cs.AI, q-bio.NC updates on arXiv.org
By: Zhizhang Yuan · Yang Yang · Gaorui Zhang · Baowen Cheng · Zehan Wu · Yuhao Xu · Xiaoying Liu · Liang Chen · Ying Mao · Meng Li
16 March 2026 at 12:00
arXiv:2603.12628v1 Announce Type: new Abstract: Speech production and perception are the main ways humans communicate daily. Prior brain-to-text decoding studies have largely focused on a single modality and alphabetic languages. Here, we present a unified brain-to-sentence decoding framework for both speech production and perception in Mandarin Chinese. The framework exhibits strong generalization ability, enabling sentence-level decoding when trained only on single-character data and supporting characters and syllables unseen during training. In addition, it allows direct and controlled comparison of neural dynamics across modalities. Mandarin speech is decoded by first classifying syllable components in Hanyu Pinyin, namely initials and finals, from neural signals, followed by a post-trained large language model (LLM) that maps sequences of toneless Pinyin syllables to Chinese sentences. To enhance LLM decoding, we designed a three-stage post-training and two-stage inference framework based on a 7-billion-parameter LLM, achieving overall performance that exceeds larger commercial LLMs with hundreds of billions of parameters or more. In addition, several characteristics were observed in Mandarin speech production and perception: speech production involved neural responses across broader cortical regions than auditory perception; channels responsive to both modalities exhibited similar activity patterns, with speech perception showing a temporal delay relative to production; and decoding performance was broadly comparable across hemispheres. Our work not only establishes the feasibility of a unified decoding framework but also provides insights into the neural characteristics of Mandarin speech production and perception. These advances contribute to brain-to-text decoding in logosyllabic languages and pave the way toward neural language decoding systems supporting multiple modalities.
Received — 14 March 2026 ⏭

Multi-Omics Characterization of Lactate-Associated Molecular Subtypes in Lung Cancer Suggests a Role for DKK1 in Lactate-Linked Migration, Invasion, and Lactylation Programs

✇(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
By: Hang Yu · Xiao-Bin An · Jin-Cheng Xu · Zhen Zhang · Long-Kai Yang · Long Qin · Qing-Sui Li · Chen-Hong Li · Xu Su · Dan Yang · Ning Wang · Jun-Nan Guo
14 March 2026 at 18:00

Cancers (Basel). 2026 Feb 25;18(5):735. doi: 10.3390/cancers18050735.

ABSTRACT

BACKGROUND: Lactate accumulation is increasingly recognized as a feature of tumor metabolic reprogramming that can coincide with immune dysregulation and aggressive phenotypes. The prognostic and immunologic relevance of lactate-associated heterogeneity in lung cancer remains to be clarified.

METHODS: We curated lactate-related genes and identified prognostic candidates in lung cancer cohorts. Consensus clustering was applied to define lactate-associated molecular subtypes, followed by characterization of survival and tumor microenvironment features. A LASSO-based gene signature was developed to generate an individual-level risk score and an integrated nomogram. Multi-omics analyses were used to evaluate concordance between transcriptomic and proteomic alterations. Single-cell transcriptomic data were analyzed to explore cellular heterogeneity in lactate-related programs. In vitro assays evaluated the response of candidate genes to lactate exposure and assessed cell migration and invasion under proliferation-inhibited conditions after genetic perturbation.

RESULTS: Two lactate-associated molecular subtypes were identified with distinct overall survival and divergent immune microenvironment features. Subtype 1 was associated with better outcomes and a more immune-inflamed profile, whereas Subtype 2 was associated with poorer outcomes and a myeloid-enriched, immunosuppressive contexture. Pathway analyses indicated subtype-associated differences in extracellular matrix-related processes and apoptosis-associated signaling. We developed an 11-gene prognostic signature and nomogram that stratified patients by risk across TCGA and GEO cohorts. Multi-omics integration highlighted ANLN, FGA, and DKK1 as consistently dysregulated at both transcript and protein levels. Among these candidates, DKK1 showed lactate-responsive induction in vitro. DKK1 perturbation altered lactate-enhanced migratory and invasive phenotypes and was accompanied by changes in intracellular lactate levels and global protein lactylation, supporting a potential feedforward relationship between lactate exposure, DKK1 expression, and lactylation.

CONCLUSIONS: This study characterizes lactate-associated molecular heterogeneity in lung cancer and provides a lactate-related subtype framework and prognostic risk model for patient stratification. The findings nominate DKK1 as a lactate-responsive candidate linked to migration/invasion phenotypes and lactate/lactylation changes in vitro.

PMID:41827671 | PMC:PMC12985219 | DOI:10.3390/cancers18050735

Multi-Omics Characterization of Lactate-Associated Molecular Subtypes in Lung Cancer Suggests a Role for DKK1 in Lactate-Linked Migration, Invasion, and Lactylation Programs

✇Omics In Lung
By: Hang Yu · Xiao-Bin An · Jin-Cheng Xu · Zhen Zhang · Long-Kai Yang · Long Qin · Qing-Sui Li · Chen-Hong Li · Xu Su · Dan Yang · Ning Wang · Jun-Nan Guo
14 March 2026 at 18:00

Cancers (Basel). 2026 Feb 25;18(5):735. doi: 10.3390/cancers18050735.

ABSTRACT

BACKGROUND: Lactate accumulation is increasingly recognized as a feature of tumor metabolic reprogramming that can coincide with immune dysregulation and aggressive phenotypes. The prognostic and immunologic relevance of lactate-associated heterogeneity in lung cancer remains to be clarified.

METHODS: We curated lactate-related genes and identified prognostic candidates in lung cancer cohorts. Consensus clustering was applied to define lactate-associated molecular subtypes, followed by characterization of survival and tumor microenvironment features. A LASSO-based gene signature was developed to generate an individual-level risk score and an integrated nomogram. Multi-omics analyses were used to evaluate concordance between transcriptomic and proteomic alterations. Single-cell transcriptomic data were analyzed to explore cellular heterogeneity in lactate-related programs. In vitro assays evaluated the response of candidate genes to lactate exposure and assessed cell migration and invasion under proliferation-inhibited conditions after genetic perturbation.

RESULTS: Two lactate-associated molecular subtypes were identified with distinct overall survival and divergent immune microenvironment features. Subtype 1 was associated with better outcomes and a more immune-inflamed profile, whereas Subtype 2 was associated with poorer outcomes and a myeloid-enriched, immunosuppressive contexture. Pathway analyses indicated subtype-associated differences in extracellular matrix-related processes and apoptosis-associated signaling. We developed an 11-gene prognostic signature and nomogram that stratified patients by risk across TCGA and GEO cohorts. Multi-omics integration highlighted ANLN, FGA, and DKK1 as consistently dysregulated at both transcript and protein levels. Among these candidates, DKK1 showed lactate-responsive induction in vitro. DKK1 perturbation altered lactate-enhanced migratory and invasive phenotypes and was accompanied by changes in intracellular lactate levels and global protein lactylation, supporting a potential feedforward relationship between lactate exposure, DKK1 expression, and lactylation.

CONCLUSIONS: This study characterizes lactate-associated molecular heterogeneity in lung cancer and provides a lactate-related subtype framework and prognostic risk model for patient stratification. The findings nominate DKK1 as a lactate-responsive candidate linked to migration/invasion phenotypes and lactate/lactylation changes in vitro.

PMID:41827671 | PMC:PMC12985219 | DOI:10.3390/cancers18050735

Received — 11 March 2026 ⏭

SWE-Fuse: Empowering Software Agents via Issue-free Trajectory Learning and Entropy-aware RLVR Training

✇cs.AI, q-bio.NC updates on arXiv.org
By: Xin-Cheng Wen · Binbin Chen · Haoxuan Lan · Hang Yu · Peng Di · Cuiyun Gao
10 March 2026 at 12:00
arXiv:2603.07927v1 Announce Type: cross Abstract: Large language models (LLMs) have transformed the software engineering landscape. Recently, numerous LLM-based agents have been developed to address real-world software issue fixing tasks. Despite their state-of-the-art performance, Despite achieving state-of-the-art performance, these agents face a significant challenge: \textbf{Insufficient high-quality issue descriptions.} Real-world datasets often exhibit misalignments between issue descriptions and their corresponding solutions, introducing noise and ambiguity that mislead automated agents and limit their problem-solving effectiveness. We propose \textbf{\textit{SWE-Fuse}}, an issue-description-aware training framework that fuses issue-description-guided and issue-free samples for training SWE agents. It consists of two key modules: (1) An issue-free-driven trajectory learning module for mitigating potentially misleading issue descriptions while enabling the model to learn step-by-step debugging processes; and (2) An entropy-aware RLVR training module, which adaptively adjusts training dynamics through entropy-driven clipping. It applies relaxed clipping under high entropy to encourage exploration, and stricter clipping under low entropy to ensure training stability. We evaluate SWE-Fuse on the widely studied SWE-bench Verified benchmark shows to demonstrate its effectiveness in solving real-world software problems. Specifically, SWE-Fuse outperforms the best 8B and 32B baselines by 43.0\% and 60.2\% in solve rate, respectively. Furthermore, integrating SWE-Fuse with test-time scaling (TTS) enables further performance improvements, achieving solve rates of 49.8\% and 65.2\% under TTS@8 for the 8B and 32B models, respectively.
Received — 25 February 2026 ⏭

Synthesizing Multimodal Geometry Datasets from Scratch and Enabling Visual Alignment via Plotting Code

✇cs.AI, q-bio.NC updates on arXiv.org
By: Haobo Lin · Tianyi Bai · Chen Chen · Jiajun Zhang · Bohan Zeng · Wentao Zhang · Binhang Yuan
24 February 2026 at 13:00
arXiv:2602.18745v1 Announce Type: cross Abstract: Multimodal geometry reasoning requires models to jointly understand visual diagrams and perform structured symbolic inference, yet current vision--language models struggle with complex geometric constructions due to limited training data and weak visual--symbolic alignment. We propose a pipeline for synthesizing complex multimodal geometry problems from scratch and construct a dataset named \textbf{GeoCode}, which decouples problem generation into symbolic seed construction, grounded instantiation with verification, and code-based diagram rendering, ensuring consistency across structure, text, reasoning, and images. Leveraging the plotting code provided in GeoCode, we further introduce code prediction as an explicit alignment objective, transforming visual understanding into a supervised structured prediction task. GeoCode exhibits substantially higher structural complexity and reasoning difficulty than existing benchmarks, while maintaining mathematical correctness through multi-stage validation. Extensive experiments show that models trained on GeoCode achieve consistent improvements on multiple geometry benchmarks, demonstrating both the effectiveness of the dataset and the proposed alignment strategy. The code will be available at https://github.com/would1920/GeoCode.

VecFormer: Towards Efficient and Generalizable Graph Transformer with Graph Token Attention

✇cs.AI, q-bio.NC updates on arXiv.org
By: Jingbo Zhou · Jun Xia · Siyuan Li · Yunfan Liu · Wenjun Wang · Yufei Huang · Changxi Chi · Mutian Hong · Zhuoli Ouyang · Shu Wang · Zhongqi Wang · Xingyu Wu · Chang Yu · Stan Z. Li
24 February 2026 at 13:00
arXiv:2602.19622v1 Announce Type: cross Abstract: Graph Transformer has demonstrated impressive capabilities in the field of graph representation learning. However, existing approaches face two critical challenges: (1) most models suffer from exponentially increasing computational complexity, making it difficult to scale to large graphs; (2) attention mechanisms based on node-level operations limit the flexibility of the model and result in poor generalization performance in out-of-distribution (OOD) scenarios. To address these issues, we propose \textbf{VecFormer} (the \textbf{Vec}tor Quantized Graph Trans\textbf{former}), an efficient and highly generalizable model for node classification, particularly under OOD settings. VecFormer adopts a two-stage training paradigm. In the first stage, two codebooks are used to reconstruct the node features and the graph structure, aiming to learn the rich semantic \texttt{Graph Codes}. In the second stage, attention mechanisms are performed at the \texttt{Graph Token} level based on the transformed cross codebook, reducing computational complexity while enhancing the model's generalization capability. Extensive experiments on datasets of various sizes demonstrate that VecFormer outperforms the existing Graph Transformer in both performance and speed.
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