| A | B | |
|---|---|---|
1 | Title | Open Review |
2 | 2Bits of Protein: Efficient Protein Language Models at the Scale of 2-bits | https://openreview.net/forum?id=bVQjzz3ABw |
3 | A generative foundation model for antibody sequence understanding | https://openreview.net/forum?id=8bKKijeRqc |
4 | ABodyBuilder3: Improved and scalable antibody structure predictions | https://openreview.net/forum?id=fmV05WuM3V |
5 | Are Protein Language Models Compute Optimal? | https://openreview.net/forum?id=Y4yma8kJo1 |
6 | BioinformaticsBench: A collaboratively built large language model benchmark for Bioinformatics reasoning | https://openreview.net/forum?id=eKw7delVSM |
7 | Caduceus: Bi-Directional Equivariant Long-Range DNA Sequence Modeling | https://openreview.net/forum?id=aWSki2rtiA |
8 | Compressing the Latent Space of Single-Sequence Protein Predictors for Multimodal Generation | https://openreview.net/forum?id=dKsjGvR1a1 |
9 | Cramming Protein Language Model Training in 24 GPU Hours | https://openreview.net/forum?id=UF0uMdFHOF |
10 | Enhancing Single-Cell VAE Latent Space via Semi-Supervision | https://openreview.net/forum?id=6gm7zNL6LL |
11 | Fine-tuning the ESM2 protein language model to understand the functional impact of missense variants | https://openreview.net/forum?id=wBETBcxoSn |
12 | FusOn-pLM: A Fusion Oncoprotein-Specific Language Model via Focused Probabilistic Masking | https://openreview.net/forum?id=Ir6CqUz0AZ |
13 | Generative Model for Small Molecules with Latent Space RL Fine-Tuning to Protein Targets | https://openreview.net/forum?id=OwXODhPdLt |
14 | Geometric Algebra based encoding for graph prompting | https://openreview.net/forum?id=LR2VeJEDFw |
15 | Graph2Token: Make LLMs Understand Molecule Graphs | https://openreview.net/forum?id=oqmbHWAGFM |
16 | High-Resolution In Silico Painting with Generative Models | https://openreview.net/forum?id=iOkub4CJvm |
17 | Identifying Biological Priors and Structure in Single-Cell Foundation Models | https://openreview.net/forum?id=UFiLmIiLYC |
18 | Injecting Hierarchical Biological Priors into Graph Neural Networks for Flow Cytometry Prediction | https://openreview.net/forum?id=HJ5ILdCHFx |
19 | Interactome-scale comparison of co-immunoprecipitation and yeast two-hybrid assays for protein interaction prediction | https://openreview.net/forum?id=QlFIJHZLLG |
20 | Learning Generative Population Models From Multiple Clinical Datasets Via Probabilistic Programming | https://openreview.net/forum?id=Sm1KnFlx0H |
21 | Likelihood-based fine-tuning of protein language models for few-shot fitness prediction and design | https://openreview.net/forum?id=OVucFZbn0c |
22 | MiniMol: A Parameter-Efficient Foundation Model for Molecular Learning | https://openreview.net/forum?id=uA8zvXmiot |
23 | MolEval: An Evaluation Toolkit for Molecular Embeddings via LLMs | https://openreview.net/forum?id=DZ77ZqfcQG |
24 | MSA Pairing Transfomer: protein interaction partner prediction with few-shot contrastive learning | https://openreview.net/forum?id=n2OIeRjp4V |
25 | Multi-Task Training Increases Native Sequence Recovery of Antigen-Specific T-cell Receptor Sequences | https://openreview.net/forum?id=8t0PnBLPFE |
26 | One-Versus-Others Attention: Scalable Multimodal Integration for Biomedical Data | https://openreview.net/forum?id=NfbclGjaFT |
27 | PLUTO: Pathology-Universal Transformer | https://openreview.net/forum?id=7yn50e6tVX |
28 | Pre-training of Single-cell Language Models through Genetic Pathway Learning | https://openreview.net/forum?id=SSpDWhOfUM |
29 | Prot2Token: A multi-task framework for protein language processing using autoregressive language modeling | https://openreview.net/forum?id=CxFKMxQA7f |
30 | ProtMamba: a homology-aware but alignment-free protein state space model | https://openreview.net/forum?id=G2aKTO2aor |
31 | Rethinking Molecular Design: Integrating Latent Variable and Auto-Regressive Models for Enhanced Goal Directed Generation | https://openreview.net/forum?id=b1hoOXgQKc |
32 | RFamLlama: an efficient conditional language model for RNA sequence generation across diverse structural families | https://openreview.net/forum?id=dXnQedxEJD |
33 | scTree: Discovering Cellular Hierarchies in the Presence of Batch Effects in scRNA-seq Data | https://openreview.net/forum?id=DT8vMKg4ZP |
34 | Simple and Effective Masked Diffusion Language Models | https://openreview.net/forum?id=DdU9gP4EXW |
35 | SWUS: Active Learning with Structure Weighted Uncertainty Score | https://openreview.net/forum?id=gym76IxDhI |
36 | Towards generalizable particle picking in Cryo-EM images by leveraging Masked AutoEncoders | https://openreview.net/forum?id=0gOL4G02CG |
37 | Training Compute-Optimal Protein Language Models | https://openreview.net/forum?id=l8MYnhSa4T |
38 | xMINT: A Multimodal Integration Transformer for Xenium Gene Imputation | https://openreview.net/forum?id=hnYLq2lwOv |