Deep Learning in Cancer

• 5465 · PDF Improving early cancer detection by training scalable deep neural networks to extract tumor signal from cell-free DNA Jackson A. Killian, Kade Pettie, Kyle Gowen, Shiva Farashahi, Esther Brown, Feras Hantash, Jocelyn Charlton, Franziska Michor, Kieran I. Chacko, Dorna Kashef
• 5467 · PDF Integrating intra- and inter-cell gene-gene interactions into deep omics data analysis for enhanced single-cell cancer biology Qingyue Wei, Sheng Liu, Chuanbao Zhang, Zixia Zhou, Wei Emma Wu, Md Tauhidul Islam, Lei Xing
• 5468 · PDF Deep learning-based analysis reveals patient-level proton radiation therapy trajectories using single-cell PBMC chromatin images Hannah M. Schlüter, Trinadha Rao Sornapudi, Dominic Leiser, Sandra Koller, Zeynep Karavelioglu, Caroline Uhler, Damien Weber, G. V. Shivashankar
• 5469 · PDF Data-efficient morphological deep learning for fine-grained Gleason grading based on AI-triaged 3D pathology Renao Yan, Gan Gao, Andrew Song, Huai-Ching Hsieh, Yujie Zhao, Cristina Almagro-Pérez, Lawrence D. True, Faisal Mahmood, Priti Lal, Anant Madabhushi, Jonathan TC Liu
• 5470 · PDF Low-magnification deep learning model for rapid HER2 status prediction from H&E whole-slide images Ziyu Su, Abdul Rehman Akbar, Usama Sajjad, Sansar Babu Tiwari, Elshad Hasanov, Arya Mariam Roy, Zaibo Li, Daniel G. Stover, Muhammad Khalid Khan Niazi
• 5471 · PDF Genie-ADLA: A deep learning algorithm for methylation-based multiple cancer early detection (MCED) Kezhong Chen, Ziyu Li, Xiaojian Wu, Jian Huang, Guoyue Lv, Weiping Wen, Dahong Zhang, Xiangyu Zhao, Danbo Wang, Zhihua Liu, Lixin Sun, Shu Wang, Xiangnan Li, Zhigang Li, Jiandong Tai, Jiayin Yang, Zhentong Wei, Ming Cai, Qiang Zhang, Songbing He, Shuhua Yi, Shenhong Qu, Wenhui Zhao, Xianjun Yu, Ruixia Guo, Jianhong Lian, Desong Yang, Huaiwu Lu, Xi Guo, Yan Zhang, Zhuowei Liu, Yingjiang Ye, Chang Lin, Jie Gao, Xuanhui Liu, Yushu Guo, Suying Ding, Guoqiang Zhao, Yanzhan Yang, Jiangyu Li, Shiqing Chen, Hui Yu, Fang Liu, Yang Wang, Min Li, Baoliang Zhu, Yonghui Li, Xiaohui Wu, Fan Yang, Jun Wang
• 5472 · PDF Deep learning reveals hidden pan-cancer drug signatures across the brain-gut axis through latent space modeling of 6.6 million single-cell perturbations Noha Samir Ismail, Kourosh Salehi-Ashtiani
• 5473 · PDF A deep learning framework for extracting comprehensive single-cell biophysical profiles from brightfield images Nicholas Calistri, Selim Olcum, Robert Kimmerling, Steven Wasserman, Rachel LaBella, Madeleine Vacha, Katelin Katsis, Reginald Aikins, Maria Ssozi
• 5474 · PDF Dyna-Q Reinforcement Learning for breast tumor malignancy classification using phantom-trained models applied to human data Chang-hee Won, Arpita Das, Dina Caroline
• 5476 · PDF GLEAM: Democratizing high-quality machine learning for cancer research Paulo Cilas Morais Lyra Junior, Junhao Qiu, Khai Dang, Alyssa Pybus, Maansi Singh, Qiang Gu, Luke Sargent, Allison L. Creason, Jeremy Goecks
• 5477 · PDF AI-driven de novo design of miniproteins targeting mutant p53 peptide-MHC-I complex for cancer immunotherapy Fengze Jin, Puja Singh, Hanyong Chen, Christopher Warlick, Yibin Deng
• 5478 · PDF Benchmarking gene expression foundation models on bulk RNA-Seq data Jong Hyun Kim, Sunwoo Yu, Soonyoung Lee, Tae Hyun Hwang, Jongseong Jang, Janghyeon Lee
• 5479 · PDF Optical spectral fingerprinting for anthracycline detection in synthetic clinical biofluids Atara R. Israel, Yunjung Kim, Adnan Arnaout, Myesha Thahsin, Yumna Ahmed, Zachary Cohen, Amelia Ryan, Syeda Rahman, Mijin Kim, Ryan Williams
• 5480 · PDF Artificial intelligence-designed peptide PROTACs suppress TNBC by regulating PD-L1 palmitoylation Miao Liu
• 5481 · PDF Learning the mechanisms of chemotherapy response using a pathway-informed transformer Zach Wallace, Ingoo Lee, Nicole M. Mattson, Sungjoon Park, Akshat Singhal, Xiaoyu Zhao, Trey Ideker
• 5482 · PDF MethylFM: A DNA methylation foundation model for modeling epigenomic regulatory dynamics Limeng Pu, Xiang Chen
• 5483 · PDF Revealing dynamic temporal trajectories and underlying regulatory networks with Cflows Shabarni Gupta, Xingzhi Sun, Alexander Tong, Manik Kuchroo, Dhananjay Bhaskar, Chen Liu, Aarthi Venkat, Beatriz P. San Juan, Laura Rangel, Vanina Rodriguez, John G. Lock, Christine Louise Chaffer, Smita Krishnaswamy
• 5484 · PDF Designing ATP-gated proteins for tumor selective drug delivery Angela Mei, Azim Dharani, Jody Mou, Benjamin Fry, Nicholas Polizzi

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