Late-Breaking Research: Bioinformatics, Computational Biology, Systems Biology, and Convergent Science 2

• LB433 Multi-omic reconstruction of metastatic prostate cancer evolution from rapid autopsy reveals polyclonal seeding and implications for liquid biopsy Azhar Khandekar, Manasvita Vashisth, Pushpa Itagi, Robert Patton, Mohamed Adil, Patricia Galipeau, Michael Haffner, Colm Morrisey, Peter Nelson, Gavin Ha
• LB434 · PDF RNA1-DA: A domain-adaptive RNA foundation model for forward and reverse translation Edward O'Brien, Michał Kukiełka, Aleksandra Cupriak, Roy Ronen, Janusz Dutkowski
• LB435 · PDF Large-scale foundation model-based PDX model selection and cancer subtype assignment Edward O'Brien, Alex Moreau, Gervaise Henry, Gilad Silberberg, Tammer Farid, Roy Ronen, Janusz Dutkowski
• LB436 Hypoxia-driven phosphatidylserine remodeling promotes conformational plasticity of ADAM17 in head and neck squamous cell carcinoma James Waters, Jonah Wannebo, Alicja Gluszko
• LB437 · PDF Extreme gene expression is widespread and functional in cancer Jee Yun Han, Yash Patel, Paul Boutros, Jaron Arbet, John Sahrmann, John M., Julie Livingstone, Nick Wiltsie, Stefan Eng, Zhuyu Qiu, James Evans, Amaan Jogia-Sattar
• LB438 Decoding therapy-induced rewiring of the tumor microenvironment networks to overcome drug resistance through multiscale mechanistic pathway crosstalk analysis Minsoo Choi
• LB439 · PDF ISWI double-knockout signatures stratify PAX3/7-FOXO1 fusion-positive vs fusion-negative rhabdomyosarcoma Ashwaq K. Aljabri
• LB440 Quantitative Systems Pharmacology (QSP) enables research and translation of AMP01, a novel next generation anti PD1 bispecific that amplifies and redirects endogenous IL15 to PD1 high expressing T Cells, maximizing efficacy and therapeutic index John M. Burke, Abhishek Mukhopadhyay, Mark Fogg, Stacey Tom-Yew, Harsh Pratap, David Flowers, Diana Marcantonio, Sarah Minucci, Diana Hausman, David de Graaf, Surjit Dixit
• LB441 Towards a platform PBPK-QSP model for first-in-human dose selection of GenSci139, a potential best-in-class EGFR×HER2 bispecific ADC, in patients with cancer Fan Zhang, Yehua Xie, Guangli Ma, Xiao Liang, Xumin Zhao, Yihui Lin, Xuan Ye, Peng Qi, Xiaozhen Wang, Haizhou Zhang, Shu Zhang, Siqin Wang, Lei Jin
• LB442 Whole body PBPK/PD modeling to support first-in-human dose selection for GenSci140, a potential best-in-class FRalpha biparatopic ADC, in patients with cancer Fan Zhang, Yehua Xie, Guangli Ma, Xiao Liang, Xumin Zhao, Yihui Lin, Xuan Ye, Peng Qi, Xiaozhen Wang, Haizhou Zhang, Shu Zhang, Siqin Wang, Lei Jin
• LB443 · PDF A foundation model of cancer genotype enables precise predictions of therapeutic response JungHo Kong, Ingoo Lee, Dean Boecher, Akshat Singhal, Marcus Kelly, Jimin Moon, Chang Ho Ahn, Chan-Young Ock, Dexter Pratt, Tannavee Kumar, Timothy Sears, David Laub, Sarah Wright, Patrick Wall, Hannah Carter, Zhen Wang, Trey Ideker
• LB445 · PDF Improved sensitivity for low-burden mutational signature detection in human cancers with SigProfilerCleaner Haoran Zhang, Raviteja Vangara, Mark Barnes, Ludmil B. Alexandrov
• LB446 · PDF Improved mutation detection in duplex sequencing data with sample-specific error profiles Yuhe Cheng, Shuvro P. Nandi, Luka Culibrk, Audrey Kristin, Isabella Stuewe, Shams Al-Azzam, Mia Petljak, Ludmil B. Alexandrov
• LB447 Somatic DiagAI: Automated scoring of drug-variant associations to support clinical decision-making in cancer genomics Nicolas Duforet Frebourg, Daiana Ganiewich, Mitchell Nemcek
• LB448 · PDF Clustered somatic mutations in normal tissues reveals shared and divergent mechanisms with cancer Erik Bergstrom, Rongjie Wu, Mousumy Kundu, Lumdil Alexandrov
• LB449 Tracing clonal evolution of the human colon from development through aging to understand colorectal cancer initiation Jinsil Jeong, Jeong Mo Bae, Seung-Yong Jeong, Ji Won Park, Hyun Jung Lee, Min Jung Kim, Young Seok Ju
• LB450 · PDF AI-assisted pathology report abstraction for breast cancer Sarah C. Van Alsten, Saianand Balu, Isaiah W. Zipple, Georgia C. Mudd, Nader Mehri, Daniel Fabbri, Melissa A. Troester

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