Publications by authors named "Yunda Si"

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Transcription reshapes RNA hairpin folding pathways revealed by all-atom molecular dynamics simulations.
Peng Tao, Yunda Si, Jie Xia, Yi Xiao

PLoS Comput Biol· September 2025

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Foundation models in molecular biology.
Yunda Si, Jiawei Zou, Yicheng Gao, Guohui Chuai, Qi Liu

Biophys Rep· June 2024

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Protein language model-embedded geometric graphs power inter-protein contact prediction.
Yunda Si, Chengfei Yan

Elife· April 2024

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Improved inter-protein contact prediction using dimensional hybrid residual networks and protein language models.
Yunda Si, Chengfei Yan

Brief Bioinform· March 2023

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Protein complex structure prediction powered by multiple sequence alignments of interologs from multiple taxonomic ranks and AlphaFold2.
Yunda Si, Chengfei Yan

Brief Bioinform· July 2022

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A reproducibility analysis-based statistical framework for residue-residue evolutionary coupling detection.
Yunda Si, Yi Zhang, Chengfei Yan

Brief Bioinform· March 2022

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Improved protein contact prediction using dimensional hybrid residual networks and singularity enhanced loss function.
Yunda Si, Chengfei Yan

Brief Bioinform· November 2021

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