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Advancing cancer detection and treatment using longitudinal routine clinical data

✇Cell
By: Fei Liu · Kai Wang · Hui Xu · Cheng Tang · Xian Shen · Meihao Wang · Lei Yang · Li Yang · Li Liu · Changxi Hu · Gen Li · Wei Wu · Zixing Zou · Bingzhou Li · Sian Liu · Jin Kang · Jungho Kong · Ting Li · Io Nam Wong · Xiaoying Huang · Gang Chen · Wenyang Lu · Ian Ziyar · Charlotte L. Zhang · Yiwen Sun · Weihong Lin · Caiwen Ou · Manson Fok · Taiwa Hou · Winston Wang · Kanmin Xue · Yun Yin · Hao Zhu · Jonathan Gootenberg · Omar O. Abudayyeh · Michael Karin · Alexandre Loupy · John E.J. Rasko · Trey Ideker · Huiyan Luo · Eric Oermann · Kang Zhang · International Consortium of Digital Twins in Healthcare and Medicine
Liu et al. develop Oncoformer, a multimodal transformer that reads routine laboratory tests and chest X-rays already collected in everyday care. Across more than 3.6 million individuals, it detects cancer, infers tumor stage, and stratifies treatment response and recurrence risk, pointing toward risk-adapted cancer care built on data already in hand.
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Integrative Multi-Omics Analysis Identifies Thrombosis-Associated Molecular Features Linked to Germline Susceptibility and Immune Cell Communication in Gastric Cancer

✇Omics in Gastric
By: Xiaogang Lu · Lin Sun · Fujun Jin · Biao Cheng · Ying Huang · Yuzhu Tang · Xiaolong Nie · Feng Gao

Chem Biol Drug Des. 2026 Sep;108(3):e70386. doi: 10.1111/cbdd.70386.

ABSTRACT

Emerging evidence indicates that coagulation-related molecular programs are associated with thrombosis, tumor progression, and molecular dysregulation in gastric cancer (GC). However, thrombosis-associated molecular features in GC and their potential links to inherited susceptibility remain insufficiently understood. Integrated analyses of transcriptomic data from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) datasets were performed to identify thrombosis-associated genes and establish a machine learning-based prognostic signature. Genome-wide association study (GWAS), expression quantitative trait loci (eQTL), transcriptome-wide association study (TWAS), and Mendelian randomization (MR) analyses were conducted to investigate susceptibility-associated transcriptional programs in GC. Functional assays were used to evaluate candidate genes associated with malignant phenotypes. Single-cell RNA sequencing (scRNA-seq) and cell-cell communication analyses were further performed to characterize cell-type-specific expression patterns and potential intercellular interactions. A total of 22 differentially expressed thrombosis-associated genes were identified, and a prognostic signature comprising 14 genes was established. The signature stratified patients into high- and low-risk groups and showed prognostic performance in both the training and validation cohorts. Integrative GWAS, eQTL, and TWAS analyses identified susceptibility-associated transcriptional programs that were positively correlated with the thrombosis-associated risk score. Silencing ACTN2 and CRYAB significantly reduced GC cell migration and invasion. scRNA-seq analysis revealed relatively high CRYAB expression in neutrophils, and CellChat analysis suggested potential neutrophil-B cell interactions involving COLLAGEN-related signaling. This integrative multi-omics study identified a thrombosis-associated molecular signature linked to prognosis and germline susceptibility-associated transcriptional programs in GC. ACTN2 and CRYAB may represent candidate genes associated with GC cell migration and invasion, while single-cell analysis suggested potential immune-related communication features.

PMID:42681916 | PMC:PMC13534880 | DOI:10.1111/cbdd.70386

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Turbo4DGen: Ultra-Fast Acceleration for 4D Generation

✇cs.AI, q-bio.NC updates on arXiv.org
By: Yuanbin Man · Ying Huang · Zhile Ren · Miao Yin
arXiv:2603.29572v1 Announce Type: cross Abstract: 4D generation, or dynamic 3D content generation, integrates spatial, temporal, and view dimensions to model realistic dynamic scenes, playing a foundational role in advancing world models and physical AI. However, maintaining long-chain consistency across both frames and viewpoints through the unique spatio-camera-motion (SCM) attention mechanism introduces substantial computational and memory overhead, often leading to out-of-memory (OOM) failures and prohibitive generation times. To address these challenges, we propose Turbo4DGen, an ultra-fast acceleration framework for diffusion-based multi-view 4D content generation. Turbo4DGen introduces a spatiotemporal cache mechanism that persistently reuses intermediate attention across denoising steps, combined with dynamically semantic-aware attention pruning and an adaptive SCM chain bypass scheduler, to drastically reduce redundant SCM attention computation. Our experimental results show that Turbo4DGen achieves an average 9.7$\times$ speedup without quality degradation on the ObjaverseDy and Consistent4D datasets. To the best of our knowledge, Turbo4DGen is the first dedicated acceleration framework for 4D generation.
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NUP85 as a Pan-Cancer Immune Biomarker: Integrated Multi Omics and Functional Analyses Reveal Its Role in Tumor Prognosis

✇(Multiomics OR Omics) AND (Lung OR gastric OR Hepatocellular)
By: Weihao Kong · Ying Hu · Kangjie Zhang · Zhipeng Zhu · Yajun Zou · Long Teng · Xingyu Wang · Jianlin Zhang

Immunotargets Ther. 2026 Mar 17;15:541852. doi: 10.2147/ITT.S541852. eCollection 2026.

ABSTRACT

PURPOSE: NUP85 encodes protein components of the Nup107-160 subunit of the nuclear pore complex, belonging to the Nucleoporins (NUPs) family, potentially implicating its role in human cancer. This study aims to elucidate the potential involvement of NUP85 in cancer pathogenesis.

METHODS: Leveraging data from The Cancer Genome Atlas (TCGA), Genotype-Tissue Expression (GTEx), Clinical Proteomic Tumor Analysis Consortium (CPTAC), Cancer Cell Line Encyclopedia (CCLE), Human Protein Atlas (HPA), Gene Expression Profiling Interactive Analysis (GEPIA), CellMiner, and GeneMANIA databases, we investigated the role of NUP85 across various tumors. Correlations between NUP85 expression and pathological stage, histological grade, survival, immune infiltration, tumor mutational burden (TMB), microsatellite instability (MSI), drug resistance, DNA methylation, copy number variation (CNV), and single-cell expression were analyzed. Gene functional enrichment analysis was conducted to explore NUP85-associated pathways. Molecular biology experiments including Western blotting, flow cytometry, trans-well migration, and invasion assays were performed to validate NUP85's oncogenic role in lung adenocarcinoma (LUAD) and oral squamous cell carcinoma (OSCC) cell lines.

RESULTS: Our findings reveal up-regulated expression of NUP85 in most tumor tissues, with significant correlations observed with pathological stage, survival, immune infiltration, TMB, MSI, drug resistance, DNA methylation, and CNV. Molecular biology experiments confirm NUP85's tumor-promoting role in LUAD and OSCC cell lines. Single-cell sequencing data suggest elevated NUP85 expression primarily in proliferative T cells (Tprolif).

CONCLUSION: NUP85 emerges as a potential tumor marker associated with tumor immunity and poor prognosis. These insights offer avenues for the development of novel therapeutic targets and anti-neoplastic drugs.

PMID:41869435 | PMC:PMC13005628 | DOI:10.2147/ITT.S541852

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Effect of a Digital-Driven Physician-Pharmacist Collaborative Model for Diabetes in Primary Health Care: Cluster Randomized Trial

✇Journal of Medical Internet Research
By: Jie Xiao · Qing Wang · Shenglan Tan · Lei Chen · Daxiong Xiang · Haiyan Yuan · Xia Li · Shuting Huang · Bingjie Tang · Yan Guo · Haiying Huang · Danhui Zhao · Yue Li · Li Wang · Qun Li · Juan Liu · Ping Xu
Background: Evidence-based physician-pharmacist collaborative clinics have demonstrated significant short-term benefits for patients with type 2 diabetes (T2D), but their long-term effectiveness remains unclear, especially in primary health care settings. Objective: This study aimed to explore the long-term effectiveness and cost-effectiveness of a novel, digital-driven, multifaceted physician-pharmacist collaborative model for managing patients with T2D in underresourced settings. Methods: We conducted a 12-month cluster randomized controlled trial from May 2021 to December 2022 across 6 primary health care settings in China. Guided by the theory of planned behavior, the intervention involved routine therapy from physicians along with pharmaceutical interventions from pharmacists. These were delivered through a combination of face-to-face visits and mobile health care. The intervention group received 4 face-to-face visits and biweekly remote education sessions over the 12 months. We conducted intention-to-treat analyses to estimate differences in clinical and behavior indicators between the intervention and control groups. Primary outcomes included glycosylated hemoglobin and 10-year atherosclerotic cardiovascular risk. Data were analyzed using adjusted generalized estimation equations. Results: This study included 574 patients (291 in the intervention group and 283 in the control group). Over 12 months, patients in the intervention group had significant reductions in hemoglobin A1c (–2.57 vs –1.96, respectively; P<.001; 95% CI –1.027 to –0.238) and 10-year atherosclerotic cardiovascular risk (–1.35 vs 0.01, respectively; P<.001; 95% CI –1.690 to –0.630) compared with the control group. Substantial improvements were also observed in several secondary outcomes, including fasting blood glucose, 2-hour postprandial blood glucose, waist circumference, waist-to-hip ratio, blood pressure, triglyceride, and total cholesterol. Total diabetes-related costs decreased, and patient satisfaction improved significantly in the intervention group. There were no significant differences in BMI, high-density lipoprotein, or low-density lipoprotein. Conclusions: These findings suggest that the physician-pharmacist collaborative model could improve the long-term quality and efficiency of T2D management and reduce medical costs in underresourced areas globally. Patients with T2D, especially those with central obesity or high cardiovascular risk, may benefit more from collaborative clinics. Trial Registration: Chinese Clinical Trial Registry ChiCTR2000031839; https://www.chictr.org.cn/showproj.html?proj=51910
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PuppetChat: Fostering Intimate Communication through Bidirectional Actions and Micronarratives

✇cs.AI, q-bio.NC updates on arXiv.org
By: Emma Jiren Wang · Siying Hu · Zhicong Lu
arXiv:2602.19463v1 Announce Type: cross Abstract: As a primary channel for sustaining modern intimate relationships, instant messaging facilitates frequent connection across distances. However, today's tools often dilute care; they favor single tap reactions and vague emojis that do not support two way action responses, do not preserve the feeling that the exchange keeps going without breaking, and are weakly tied to who we are and what we share. To address this challenge, we present PuppetChat, a dyadic messaging prototype that restores this expressive depth through embodied interaction. PuppetChat uses a reciprocity aware recommender to encourage responsive actions and generates personalized micronarratives from user stories to ground interactions in personal history. Our 10-day field study with 11 dyads of close partners or friends revealed that this approach enhanced social presence, supported more expressive self disclosure, and sustained continuity and shared memories.
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Foundation and Large-Scale AI Models in Neuroscience: A Comprehensive Review

✇cs.AI, q-bio.NC updates on arXiv.org
By: Shihao Yang · Xiying Huang · Danilo Bernardo · Jun-En Ding · Andrew Michael · Jingmei Yang · Patrick Kwan · Ashish Raj · Feng Liu
arXiv:2510.16658v2 Announce Type: replace Abstract: The development of large-scale artificial intelligence (AI) models is influencing neuroscience research by enabling end-to-end learning from raw brain signals and neural data. In this paper, we review applications of large-scale AI models across five major neuroscience domains: neuroimaging and data processing, brain-computer interfaces and neural decoding, clinical decision support and translational frameworks, and disease-specific applications across neurological and psychiatric disorders. These models show potential to address major computational neuroscience challenges, including multimodal neural data integration, spatiotemporal pattern interpretation, and the development of translational frameworks for clinical research. Moreover, the interaction between neuroscience and AI has become increasingly reciprocal, as biologically informed architectural constraints are now incorporated to develop more interpretable and computationally efficient models. This review highlights both the promise of such technologies and critical implementation considerations, with particular emphasis on rigorous evaluation frameworks, effective integration of domain knowledge, prospective clinical validation, and comprehensive ethical guidelines. Finally, a systematic listing of critical neuroscience datasets used to develop and evaluate large-scale AI models across diverse research applications is provided.
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How Multimodal Large Language Models Support Access to Visual Information: A Diary Study With Blind and Low Vision People

✇cs.AI, q-bio.NC updates on arXiv.org
By: Ricardo E. Gonzalez Penuela · Crescentia Jung · Sharon Y Lin · Ruiying Hu · Shiri Azenkot
arXiv:2602.13469v1 Announce Type: cross Abstract: Multimodal large language models (MLLMs) are changing how Blind and Low Vision (BLV) people access visual information in their daily lives. Unlike traditional visual interpretation tools that provide access through captions and OCR (text recognition through camera input), MLLM-enabled applications support access through conversational assistance, where users can ask questions to obtain goal-relevant details. However, evidence about their performance in the real-world and their implications for BLV people's everyday life remain limited. To address this, we conducted a two-week diary study, where we captured 20 BLV participants' use of an MLLM-enabled visual interpretation application. Although participants rated the visual interpretations of the application as "somewhat trustworthy" (mean=3.76 out of 5, max=very trustworthy) and "somewhat satisfying" (mean=4.13 out of 5, max=very satisfying), the AI often produced incorrect answers (22.2%) or abstained (10.8%) from responding to follow-up requests. Our work demonstrates that MLLMs can improve the accuracy of descriptive visual interpretations, but that supporting everyday use also depends on the "visual assistant" skill -- a set of behaviors for providing goal-directed, reliable assistance. We conclude by proposing the "visual assistant" skill and practical guidelines to help future MLLM-enabled visual interpretation applications better support BLV people's access to visual information.
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