12 papers
SAVE: A Generalizable Framework for Multi-Condition Single-Cell Generation with Gene Block Attention
Jiahao Li, Jiayi Dong, Peng Ye +3
Modeling single-cell gene expression across diverse biological and technical conditions is crucial for characterizing cellular states and simulating unseen scenarios. Existing meth…
Fair splits flip the leaderboard: CHANRG reveals limited generalization in RNA secondary-structure prediction
Zhiyuan Chen, Zhenfeng Deng, Pan Deng +4
Accurate prediction of RNA secondary structure underpins transcriptome annotation, mechanistic analysis of non-coding RNAs, and RNA therapeutic design. Recent gains from deep learn…
scMRDR: A scalable and flexible framework for unpaired single-cell multi-omics data integration
Jianle Sun, Chaoqi Liang, Ran Wei +5
Advances in single-cell sequencing have enabled high-resolution profiling of diverse molecular modalities, while integrating unpaired multi-omics single-cell data remains challengi…
Biology-Instructions: A Dataset and Benchmark for Multi-Omics Sequence Understanding Capability of Large Language Models
Haonan He, Yuchen Ren, Yining Tang +12
Large language models (LLMs) have shown remarkable capabilities in general domains, but their application to multi-omics biology remains underexplored. To address this gap, we intr…
A CLIP-Powered Framework for Robust and Generalizable Data Selection
Suorong Yang, Peng Ye, Wanli Ouyang +2
Large-scale datasets have been pivotal to the advancements of deep learning models in recent years, but training on such large datasets invariably incurs substantial storage and co…
The Avengers: A Simple Recipe for Uniting Smaller Language Models to Challenge Proprietary Giants
Yiqun Zhang, Hao Li, Chenxu Wang +11
Proprietary giants are increasingly dominating the race for ever-larger language models. Can open-source, smaller models remain competitive across a broad range of tasks? In this p…