arXiv:2607. 20382v1 Announce Type: cross Abstract: Clinical biomarker workflows in translational research settings often rely on spreadsheet-driven tracking, manual quality control (QC) reconciliation, and loosely integrated systems, resulting in limited state visibility, delayed reporting, and increased operational risk.
By Eva McCord, Ernest Pedapati, Zag ElSayed
arXiv:2605. 09366v3 Announce Type: replace Abstract: Transforming neuroimaging data into clinically actionable biomarkers is a knowledge-intensive and labor-intensive process.
By Keqi Han, Songlin Zhao, Yao Su, Xiang Li, Yixuan Yuan, Lifang He, Carl Yang
arXiv:2609.01202v1 Announce Type: cross
Abstract: Clinical trials are essential for advancing cancer care and drug development, but many fail because of insufficient patient enrollment. While there i...
By Yin Fang, Qiao Jin, Shubo Tian, Lauren He, Maya Geer, Noor Naffakh, Ryan Huu-Tuan Nguyen, Zifeng Wang, Jimeng Sun, Charalampos S. Floudas, James L. Gulley, Kamilia Moalem, Catarina Martins Maia, Amanda Nottke, Juan W. Valle, Melinda Bachini, Lourdes Rocha-Nussbaum, Kari Ramage, Nikita Curry, Megan Barnes, Mandy Mansaray, Darlene Gabeau, Craig E. Grossman, Heath Skinner, Michael Burczynski, NIH-TrialBench Consortium, Zhiyong Lu
arXiv:2606. 01961v1 Announce Type: new Abstract: Autonomous agents are increasingly expected to support end-to-end medical-AI research workflows, moving beyond isolated prediction tasks or short-form clinical question answering.
By Junqi Liu, Salena Song, Yuhan Wang, Jiawei Mao, Hardy Chen, Xiaoke Huang, Tianhao Qi, Pengfei Guo, Yucheng Tang, Yufan He, Can Zhao, Andriy Myronenko, Dong Yang, Daguang Xu, Yuyin Zhou
arXiv:2601. 21800v4 Announce Type: replace Abstract: We introduce BioAgent Bench, an evaluation suite designed for measuring the performance and robustness of AI agents in common bioinformatics tasks.
By Dionizije Fa, Marko Culjak, Bruno Pandza, Mateo Cupic
Clinical biomarker workflows in translational research settings often rely on spreadsheet-driven tracking, manual quality control (QC) reconciliation, and loosely integrated systems, resulting in limited state visibility, delayed reporting, and increased operational risk. These challenges are particularly pronounced in multi-day assays such as Luminex-based quantification of Fragile X Messenger Ribonucleoprotein (FMRP), where HIPAA-compliant data governance, deterministic workflow progression, and coordinated communication across laboratory and clinical teams are required.
arXiv:2607. 06531v1 Announce Type: new Abstract: - Objective: Multimodal deep learning models in oncology are currently limited by monolithic designs that rigidly couple data ingestion, clinical routing, and artificial intelligence (AI) inference.
By Ghassen Marrakchi, Basarab Matei
EviDx is a new framework for evidence-aware active diagnosis that pairs patient-specific diagnostic environments with a clinical scaffold and an observer-guided runtime harness. The framework constructs interactive environments from raw clinical cases, organizes role-specialized agents and evidence tools, and regulates diagnostic termination by tracking uncertainty and evidence coverage. Experiments demonstrate that EviDx improves diagnostic performance and process stability while revealing model-dependent capability boundaries.
By Lihang Zeng, Shaoting Zhang, Xiaofan Zhang
AI Morbidity and Mortality (AI M&M) is a structured, blameless framework designed to review clinical AI failures. It combines standardized case intake, evidence preservation, investigator reconstruction, tool‑in‑loop attribution, and corrective‑action tracking, classifying each event across four linked dimensions: Trigger, Mechanism, Clinical Pathway, and Corrective Action. The authors demonstrate the framework with five outpatient medication and clinical decision‑support cases, achieving full agreement among reviewers on all classification axes.
By Paulius Mui, Dean F. Sittig, Steve Labkoff, Sanjay Basu
arXiv:2606. 18425v1 Announce Type: cross Abstract: Scientific workflow management systems (WMS) support scalable and reproducible execution of complex pipelines, but workflow design, implementation, and debugging remain largely manual and require significant expertise.
By Komal Thareja, Hamza Safri, Rajiv Mayani, Anirban Mandal, Ewa Deelman
arXiv:2510. 04033v2 Announce Type: replace Abstract: Modern computer systems rely on syslog, a universal protocol that records critical events across heterogeneous infrastructure.
By Ayush Noori, Aaron E. Boussina, Hai Ho Bich, James Anibal, Julia Maslinski, Manuel Burger, Martin Faltys, Adam Rodman, Alan Karthikesalingam, Alessandro Blasimme, Annelia Itwaru, Ben Kaplan, Bilal A. Mateen, Christopher A. Longhurst, Daniel Yang, Dave deBronkart, Effy Vayena, Fedor Sergeev, Gauden Galea, Ha Thi Hai Duong, Harold F. Wolf III, Jacob Waxman, Joerg C. Schefold, Joshua C. Mandel, Juliana Rotich, Kenneth D. Mandl, Lily Poursoltan, Maryam Mustafa, Melissa Miles, Nigam H. Shah, Noa Dagan, Pavan Bodanki, Peter Lee, Philipp Koralus, Prathamesh Parchure, Prem Timsina, Ran D. Balicer, Robert Korom, Scott Mahoney, Seth Hain, Tien Yin Wong, Trevor Mundel, Vivek Natarajan, Ankit Sakhuja, Benjamin Glicksberg, C. Louise Thwaites, Gunnar R\"atsch, Karandeep Singh, David A. Clifton, Isaac S. Kohane, Marinka Zitnik
arXiv:2602. 14010v2 Announce Type: replace-cross Abstract: Pathology foundation models (PFMs) generalize well across computational pathology tasks but remain costly for gigapixel whole-slide image analysis.
By Yu Cai, Cheng Jin, Zhengyu Zhang, Jiabo Ma, Fengtao Zhou, Yingxue Xu, Zhengrui Guo, Yihui Wang, Zhengyu Zhang, Ling Liang, Yonghao Tan, Pingcheng Dong, Du Cai, On Ki Tang, Chenglong Zhao, Zhijian Cen, Ying Tan, Xi Wang, Can Yang, Yali Xu, Jing Cui, Zhenhui Li, Ronald Cheong Kin Chan, Yueping Liu, Feng Gao, Xiuming Zhang, Li Liang, Hao Chen, Kwang-Ting Cheng