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Steering Masked Discrete Diffusion Models via Discrete Denoising Posterior Prediction
Jarrid Rector-Brooks, Mohsin Hasan, Zhangzhi Peng, Zachary Quinn, Chenghao Liu, Sarthak Mittal, Nouha Dziri, Michael Bronstein, Yoshua Bengio, Pranam Chatterjee, Alex Tong*, Avishek Joey Bose*
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Defining and Benchmarking Open Problems in Single-Cell Analysis
With the growing number of single-cell analysis tools, benchmarks are increasingly important to guide analysis and method development. …
Malte Luecken*, Scott Gigante*, Daniel Burkhardt*, Robrecht Cannoodt, Daniel Strobl, Nikolay Markov, Luke Zappia, Giovanni Palla, Wesley Lewis, Daniel Dimitrov, Michael Vinyard, Daniel Magruder, Alma Andersson, Emma Dann, Qian Qin, Dominik Otto, Michal Klein, Olga Botvinnik, Louise Deconinck, Kai Waldrant, Bastian Rieck, Constantin Ahlmann-Eltze, Eduardo Da Veiga Beltrame, Andrew Benz, Carmen Bravo González-Blas, Ann Chen, Benjamin DeMeo, Can Ergen, Swann Floc'hlay, Adam Gayoso, Stephanie Hicks, Yuge Ji, Vitalii Kleshchevnikov, Gioele La Manno, Maximilian Lombardo, Romain Lopez, Dario Righelli, Hirak Sarkar, Valentine Svensson, Alex Tong, Galen Xing, Chenling Xu, Jonathan Bloom, Angela Pisco, Julio Saez-Rodriguez, Drausin Wulsin, Luca Pinello, Yvan Saeys, Fabian Theis, Smita Krishnaswamy
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Generating Multi-Modal and Multi-Attribute Single-Cell Counts with CFGen
Alessandro Palma, Till Richter, Hanyi Zhang, Manuel Lubetzki, Alex Tong, Andrea Dittadi, Fabian Theis
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Causal Inference in Gene Regulatory Networks with GFlowNet: Towards Scalability in Large Systems
Understanding causal relationships within Gene Regulatory Networks (GRNs) is essential for unraveling the gene interactions in cellular …
Trang Nguyen, Alex Tong, Kanika Madan, Yoshua Bengio, Dianbo Liu
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Learning Transcriptional and Regulatory Dynamics Driving Cancer Cell Plasticity Using Neural ODE-Based Optimal Transport
Alex Tong*, Manik Kuchroo*, Shabarni Gupta, Aarthi Venkat, Beatriz P. San Juan, Laura Rangel, Brandon Zhu, John G. Lock, Christine L. Chaffer, Smita Krishnaswamy
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