5 papers
Socrates-Mol: Self-Oriented Cognitive Reasoning through Autonomous Trial-and-Error with Empirical-Bayesian Screening for Molecules
Xiangru Wang, Zekun Jiang, Heng Yang +4
Molecular property prediction is fundamental to chemical engineering applications such as solvent screening. We present Socrates-Mol, a framework that transforms language models in…
OmniGenBench: A Modular Platform for Reproducible Genomic Foundation Models Benchmarking
Heng Yang, Jack Cole, Yuan Li +3
The code of nature, embedded in DNA and RNA genomes since the origin of life, holds immense potential to impact both humans and ecosystems through genome modeling. Genomic Foundati…
OmniGenBench: Automating Large-scale in-silico Benchmarking for Genomic Foundation Models
Heng Yang, Jack Cole, Ke Li
The advancements in artificial intelligence in recent years, such as Large Language Models (LLMs), have fueled expectations for breakthroughs in genomic foundation models (GFMs). T…
Bridging Sequence-Structure Alignment in RNA Foundation Models
Heng Yang, Renzhi Chen, Ke Li
The alignment between RNA sequences and structures in foundation models (FMs) has yet to be thoroughly investigated. Existing FMs have struggled to establish sequence-structure ali…
InstOptima: Evolutionary Multi-objective Instruction Optimization via Large Language Model-based Instruction Operators
Heng Yang, Ke Li
Instruction-based language modeling has received significant attention in pretrained language models. However, the efficiency of instruction engineering remains low and hinders the…