Machine Learning in Computational Biology: Daily Digest

03.12.2025: Molecular Generation, Advanced Embeddings, and Benchmarking in Biological Systems


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0:00 Molecular Embedding-Based Algorithm Selection in Protein-Ligand Docking (https://arxiv.org/pdf/2512.02328.pdf)
3:59 Graph VQ-Transformer (GVT): Fast and Accurate Molecular Generation via High-Fidelity Discrete Latents (https://arxiv.org/pdf/2512.02667.pdf)
8:28 Vessel Network Topology in Molecular Communication: Insights from Experiments and Theory (https://arxiv.org/pdf/2512.02811.pdf)
12:52 Modulation of DNA rheology by a transcription factor that forms aging microgels (https://arxiv.org/pdf/2512.02864.pdf)
17:42 Imperfect molecular detection renormalizes apparent kinetic rates in stochastic gene regulatory networks (https://arxiv.org/pdf/2512.02908.pdf)
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