Journal: Patterns

Volume 7, Issue 5

101493 -- 0Patrick Kuckertz, Benjamin Fuchs, Julian Schönau, Hedda Gardian, Kevin Knosala, Eugenio Salvador Arellano Ruiz, Jan Göpfert, Hans Christian Gils, Jann M. Weinand, Patrick Jochem, Jochen Linßen, Detlef Stolten. A framework for reproducibly managing coupled research software and data assets based on shared transformation functions
101495 -- 0Yuhao Zhou, Wenhao Chen, María Óskarsdóttir, Matthew Davison 0001, Cristián Bravo. Unveiling gender disparities in corporate board career paths using deep learning
101511 -- 0Benjamin S. Mashford, Timothy Hewitt, Maryam May, Zixin Zhuang, Akshat Jain, Koula E. M. Diamand, Fei-Ju Li, Kristy Kwong, Stuart H. Read, Ainsley R. Davies, Dillon Hammill, T. Daniel Andrews. VoxelCoder: Classification of human cellular phenotypes via autoencoder batch alignment and hyperdimensional representation of cytometry data
101513 -- 0Victor Gimenez-Abalos, Sergio Álvarez-Napagao, Adrián Tormos, Sara Montese, Ulises Cortés, Javier Vázquez-Salceda. Intentional policy graphs: A pipeline for explaining agent behavior through intentions
101514 -- 0Dave Bunten, Jenna Tomkinson, Erik Serrano, Michael J. Lippincott, Kenneth I. Brewer, Vincent Rubinetti, Faisal Alquaddoomi, Gregory P. Way. Scalable data harmonization for single-cell image-based profiling with CytoTable
101515 -- 0Ting Wang, Zipei Yan, Hongyi Pan, Kai Zhang, Michael K. P. Ng, Xiqian Yu, Chao Wang 0067, Jizhou Li. Data-driven deformation correction in X-ray spectro-tomography with implicit neural networks
101517 -- 0Peter Slattery, Alexander K. Saeri, Emily A. C. Grundy, Jess Graham, Michael Noetel, Risto Uuk, James Dao, Soroush Pour, Stephen Casper, Neil Thompson. The AI risk repository: A meta-review, database, and taxonomy of risks from artificial intelligence
101518 -- 0Wojtek Treyde, Aleksy Kwiatkowski, Jascha Achterberg, Danyal Akarca, Martin Buttenschoen, Rory T. Byrne, Kieran Didi, Kristina Kordova, Jakub Lála, Jonathon Langford, Austin M. Mroz, Puria Radmard, Filip T. Szczypinski, Eva Sevenster, Inga Van den Bossche, Michal Wójcik. Organizing across disciplines to tackle shared computational challenges
101519 -- 0Can Wang, Yiqun Chen. Evaluating large language models for evidence-based clinical question answering
101534 -- 0Michael A. Lones. Pitfalls and risks of generative AI in machine learning
101535 -- 0Chaoyu Lei, Ying Zuo, Claudia Isabel Marques de Abreu Lopes, Jaimee Stuart, Benjamin Xu, T. Y. Alvin Liu, Thomas Ploug, Zilong Wang 0006, Kang Dang, Kai Jin, Haoxuan Yu, Heaven Yeshaneh Tatere, Fanyi Kong, Ning Zhang, Lufa Zhang, Huifang Zhou. Centering the marginalized: AI-driven strategies for advancing health equity in rare disease care
101536 -- 0Eduardo Aguilar-Bejarano, Daniel Lea, Karthikeyan Sivakumar, Jimiama Mafeni Mase, Reza Omidvar, Ruizhe Li 0005, Troy Kettle, James Mitchell-White, Morgan R. Alexander, David A. Winkler, Grazziela Patrocinio Figueredo. Helix 1.0: An open-source framework for reproducible and interpretable machine learning on tabular scientific data
101539 -- 0Alec D. Maccall. Navigating the manifold: A transformative approach to AI image generation
101540 -- 0Andrei Biswas, Rajagopal Venkatesaramani. Encouraging productive struggle in the age of generative AI
101541 -- 0Yuhao Zhou, María Óskarsdóttir, Cristián Bravo. Breaking the glass ceiling: An interview with Yuhao (Jet) Zhou, María Óskarsdóttir, and Cristián Bravo

Volume 7, Issue 4

101453 -- 0Maria Kuzikov, Adelinn Kalman, Reagon Karki, Jeanette Reinshagen, Johanna Huchting, Kun Qian, Hanna Axelsson, Marianna Tampere, Päivi Östling, Brinton Seashore-Ludlow, Yojana Gadiya, Philip Gribbon, Andrea Zaliani. Experimental and machine learning-based exploration of repurposed drugs reveals chemical features underlying phospholipidosis
101454 -- 0Akshat Dubey, Aleksandar Anzel, Bahar Ilgen, Georges Hattab. UbiQTree: Uncertainty quantification in XAI with tree ensembles
101470 -- 0Roque Lopez, Aécio S. R. Santos, Christos Koutras, Juliana Freire. BDI-Kit: An AI-powered toolkit for biomedical data harmonization
101471 -- 0Zuozhu Liu, Songtao Jiang, Tianxiang Hu, Ziwei Xue, Yuhui Chen, Dengfeng Ruan, Haoxiang Xia, Yang Feng 0011, Jin Hao, Wei Li, Joey Tianyi Zhou, Bing Fang, Jian Wu 0001, Wanlu Liu. DestinyNet: A deep-learning framework for cell-fate analysis from lineage-tracing single-cell RNA sequencing data
101491 -- 0George Vengrovski, Miranda R. Hulsey-Vincent, Melissa A. Bemrose, Timothy J. Gardner. TweetyBERT: Automated parsing of birdsong through self-supervised machine learning

Volume 7, Issue 3

101427 -- 0Madhumita Mondal, Yasharth Yadav, Jürgen Jost, Areejit Samal. Node persistence from topological data analysis reveals changes in brain functional connectivity
101448 -- 0Fei Ma, Haobo Zhang 0003, Siyi Fang, Qimei Wang, Fan Lin, Lianying Chao, Zhiwei Wang 0002, Qiang Li 0018, Peng Zhang 0106. Hierarchical fusion of electrocardiogram and phonocardiogram data improves heart failure detection
101452 -- 0Yi Huang 0019, Yeonju Go, Jin Huang, Shuhang Li, Xihaier Luo, Thomas Marshall, Joseph D. Osborn, Christopher Pinkenburg, Yihui Ren 0001, Evgeny Shulga, Shinjae Yoo, Byung-Jun Yoon. Variable rate neural compression for sparse detector data
101457 -- 0Hanna M. Tolle, Andrea I. Luppi, Anil K. Seth, Pedro A. M. Mediano. Evolving reservoir computers reveal bidirectional coupling between predictive power and emergent dynamics
101474 -- 0Chapin S. Korosec, Jessica M. Conway, Vitaliy A. Matveev, Mario A. Ostrowski, Jane M. Heffernan, Mohammad Sajjad Ghaemi. Modeling of longitudinal immune profiles reveals distinct immunogenic signatures following five COVID-19 vaccinations among people living with HIV
101477 -- 0Yong Chen 0020, Chenlei Liao, Zeen Cai, Wanru Wang, Yingji Xia, Xiqun Michael Chen, Jianjun Wu, ZiYou Gao. Promoting sustainable human mobility for income segregation mitigation
101496 -- 0Anand K. Gavai, Miranda P. M. Meuwissen. Agentic AI as a coordination paradigm in digital health and agri-food systems
101497 -- 0Georgia Channing, Avijit Ghosh. AI for scientific discovery is a social problem
101512 -- 0Irving Torres. A call to join a collective effort on AI evaluation
101516 -- 0Lizhen Zhu, Chaewan Chun, Kathryn Brown, James Z. Wang. Mapping the flow of painterly gesture

Volume 7, Issue 2

101419 -- 0Clinton M. Holt, Alexis K. Janke, Parastoo Amlashi, Parker J. Jamieson, Toma M. Marinov, Ivelin S. Georgiev. Contrastive learning enables epitope overlap predictions for targeted antibody discovery
101423 -- 0Felipe Yáñez, Xiaoliang Luo, Omar Valerio Minero, Bradley C. Love. Confidence-weighted integration of human and machine judgments for superior decision-making
101425 -- 0Oriol Gracia Carmona, Vilde Leipart, Gro V. Amdam, Christine A. Orengo, Franca Fraternali. Leveraging protein language models and a scoring function for indel characterization and transfer learning
101426 -- 0Xiang Zhang, Mingyue Zhao, Fei Yao, Wenxin Ma, Jin Zhang, Yueze Li, Xiuxiu Zhou, Yu Guan, Yi Xiao, Li Fan 0002, Shaohua Kevin Zhou, Shiyuan Liu. A self-supervised framework for emphysema anomaly detection and staging in computed tomography scans
101431 -- 0Tianyu Liu, TianQi Chen, Wangjie Zheng, Xiao Luo, Yiqun Chen, Hongyu Zhao. Embeddings from language models are good learners for single-cell data analysis
101455 -- 0Jiaru Jia, Mingzhe Liu 0001, Dongfen Li, Xin Chen, Ruili Wang, Linlin Zhuo, Keqin Li 0001. A label masked autoencoder for image-guided segmentation label completion
101475 -- 0Minjun Kang, Seungdae Baek, Se-Bum Paik. Prewired static visual receptive fields for environment-agnostic perception
101492 -- 0Michael F. Gensheimer. Creating strong predictive models in oncology
101494 -- 0Alan W. Freeman. Making neural networks more neural

Volume 7, Issue 1

101417 -- 0Thomas Burger. Keeping generative artificial intelligence reliable in omics biology
101420 -- 0Enrica Nestola, Gregorio Sgrigna, Gianmarco Ingrosso, Andrea Tarallo, Davide Raho, Cristina Di Muri, Alexandra Nicoleta Muresan, Ilaria Rosati. Assessing the adoption of the FAIR principles in Italian environmental research infrastructures
101422 -- 0Thomas Nortmann, Philip Sulewski, Tim C. Kietzmann. Predictive remapping and allocentric coding as consequences of energy efficiency in recurrent neural network models of active vision
101429 -- 0Tuo An, Yunjiao Zhou, Han Zou, Jianfei Yang. IoT-LLM: A framework for enhancing large language model reasoning from real-world sensor data
101430 -- 0Alex De Vries. The carbon and water footprints of data centers and what this could mean for artificial intelligence
101432 -- 0Galina Tremper, Torben Brenner, Moanes Ben Amor, Tobias Kussel, Martin Lablans. Mainzelliste: Ten years of pseudonymization, record linkage, and informed consent management
101451 -- 0Arend Hintze, Frida Proschinger Åström, Jory Schossau. Autonomous language-image generation loops converge to generic visual motifs
101456 -- 0Sarah Samorodnitsky, Katie Campbell, Amarise Little, Wodan Ling, Ni Zhao, Yen-Chi Chen, Michael C. Wu. Detecting clinically relevant topological structures in multiplexed spatial proteomics using TopKAT
101472 -- 0Erik Hoel. Quantifying emergent complexity
101473 -- 0Zhicheng Lin, Aamir Sohail. Recalibrating academic expertise in the age of generative AI
101476 -- 0Olive R. Cawiding, Yun Min Song, Jae Kyoung Kim. A reframed landscape of causal emergence