Publications

(*equal contribution, #corresponding)

π-PrimeNovo: An Accurate and Efficient Non-Autoregressive Deep Learning Model for De Novo Peptide Sequencing
Zhang X*, Ling T*, Jin Z*, Xu S*, Gao Z, Sun B, Qiu Z, Wei J, Dong N, Wang G, Wang G, Li L, Mageed M, Lakshmanan L, He F, Ouyang W#, Chang C#, Sun S#. Nature Communications. 2024.
[Paper] [π-HuB project WeChat Official Account] [DrugAI WeChat Official Account]

NovoBench: Benchmarking Deep Learning-based De Novo Peptide Sequencing Methods in Proteomics
Zhou J, Chen S, Xia J, Liu S, Ling T, Du W, Liu Y, Yin J, Li S. arXiv. 2024.
[Paper]

Introducing π-HelixNovo for Practical Large-scale De Novo Peptide Sequencing
Yang T, Ling T, Sun B, Liang Z, Xu F, Huang X, Xie L, He Y, Li L, He F, Wang Y#, Chang C#. Briefings in Bioinformatics. 2024.
[Paper]

ContraNovo: A Contrastive Learning Approach to Enhance De Novo Peptide Sequencing
Jin Z*, Xu S*, Zhang X*, Ling T, Dong, N, Ouyang, W#, Gao, Z#, Chang, C#, Sun, S#. AAAI 2024.
[Paper]

AdaNovo: Adaptive De Novo Peptide Sequencing with Conditional Mutual Information
Xia J, Chen S, Zhou J, Ling T, Du W, Liu S, Li S. arXiv. 2024.
[Paper]

Characterizing RNA-binding Ligands on Structures, Chemical Information, Binding Affinity and Drug-likeness
Fan C, Wang X, Ling T, Yang Y, Zhao H#. RNA Biology. 2023.
[Paper]

Systematic Analysis to Identify Transcriptome-wide Dysregulation of Alzheimer’s Disease in Genes and Isoforms
Fan C, Ken C, Zhou J, Wong P, He D, Huang Y, Wang X, Ling T, Yang Y. Zhao H#. Human Genetics. 2020.
[Paper]