Decoding Biomolecular Languages

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Measuring Graph-to-Graph Semantic Similarity in Knowledge Graphs: An Empirical Evaluation of Knowledge Graph Embeddings https://export.arxiv.org/pdf/2606.29180.pdf 1:22 - Clarus: Coordinating Autonomous Research Agents toward Web-Scale Scientific Collaboration https://expo...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Molexar: A Unified Multimodal Molecular Foundation Model for Drug Design https://export.arxiv.org/pdf/2606.25865.pdf ---------------------------------------- scholarfm.com

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Predicting protein-protein interaction sites based on dynamic perception mechanism within a hierarchical E(n)-equivariant graph. https://doi.org/10.1093/bib/bbag304 1:04 - Proteomics-Driven Strategies for Proximity-Inducing Drug Discovery. https://doi.org/10.1002/anie.3307...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Evaluating the Representation Space of Diffusion Models via Self-Supervised Principles https://export.arxiv.org/pdf/2606.09718.pdf 1:10 - Uncertainty Estimation for Molecular Diffusion Models https://export.arxiv.org/pdf/2606.13451.pdf -------------------------------------...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Structure-Guided Adaptive Propagation for Protein-Protein Interaction Site Prediction https://export.arxiv.org/pdf/2606.01781.pdf 1:03 - COMAP: Co-Evolving World Models and Agent Policies for LLM Agents https://export.arxiv.org/pdf/2606.02372.pdf 1:58 - Harness-1: Reinforc...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Geometric Flow Matching for Molecular Conformation Generation via Manifold Decomposition https://export.arxiv.org/pdf/2605.25577.pdf 1:09 - Co-folding model guided by structural proteomics https://export.arxiv.org/pdf/2605.26192.pdf 2:01 - PhAME: Phenotype-Aware Molecular...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Causely: A Causal Intelligence Layer for Enterprise AI A Benchmark Study on SRE and Reliability Workflows https://export.arxiv.org/pdf/2605.18327.pdf 1:12 - QSTRBench: a New Benchmark to Evaluate the Ability of Language Models to Reason with Qualitative Spatial and Tempora...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:10 - Evolving-RL: End-to-End Optimization of Experience-Driven Self-Evolving Capability within Agents https://export.arxiv.org/pdf/2605.10663.pdf ---------------------------------------- scholarfm.com

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Counterfactual Reasoning in Automated Planning https://export.arxiv.org/pdf/2605.02603.pdf 0:52 - SCGNN: Semantic Consistency enhanced Graph Neural Network Guided by Granular-ball Computing https://export.arxiv.org/pdf/2605.02617.pdf 1:45 - SCGNN: Semantic Consistency enha...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:08 - Learning Structure, Energy, and Dynamics: A Survey of Artificial Intelligence for Protein Dynamics https://export.arxiv.org/pdf/2604.25244.pdf ---------------------------------------- scholarfm.com

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - Structure-guided molecular design with contrastive 3D protein-ligand learning https://export.arxiv.org/pdf/2604.19562.pdf 1:05 - BioMiner: A Multi-modal System for Automated Mining of Protein-Ligand Bioactivity Data from Literature https://export.arxiv.org/pdf/2604.21508.p...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:09 - TriFit: Trimodal Fusion with Protein Dynamics for Mutation Fitness Prediction https://export.arxiv.org/pdf/2604.12026.pdf 1:07 - Scaffold-Conditioned Preference Triplets for Controllable Molecular Optimization with Large Language Models https://export.arxiv.org/pdf/2604.12...

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:10 - MAVEN: A Mesh-Aware Volumetric Encoding Network for Simulating 3D Flexible Deformation https://export.arxiv.org/pdf/2604.04474.pdf ---------------------------------------- scholarfm.com

This podcast is brought to you by Scholar FM. ---------------------------------------- Papers included in this episode: 0:08 - Estimating Protein Conformational States from High-Speed AFM Images with Molecular Dynamics and Deep Learning. https://doi.org/10.1021/acs.jcim.6c00142 1:01 - Discovery of WRN helicase inhibitors by 3D-CNN docking and ML consensus from traditional Chinese medicine monomers...