Author

Yan-Lam Lee

University of Hong KongORCID 0000-0002-4518-9789Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 4

Signature Assays, Organisms & Methods

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Research Focus:variant calling· 4 Approach:deep learning· 3 Assay:long-read sequencing· 3 Research Focus:benchmarking· 1 Approach:experimental assay· 1 Assay:metagenomics· 1 Assay:scRNA-seq· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Ruibang LuoiD· 4 shared Zhenxian ZhengiD· 4 shared Junhao SuiD· 3 shared Lei CheniD· 3 shared Xian YuiD· 3 shared Angel On Ki Wong· 2 shared Tak‐Wah LamiD· 2 shared Amy Wing-Sze LeungiD· 1 shared

Activity by Year

2022-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 35 mutual co-author links

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4 shared papersBioinformatics

Ruibang LuoORCID

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4 papers

Recent·Most cited

ClairS: a deep-learning method for long-read somatic small variant calling

Zhenxian Zheng, Lei Chen, Junhao Su, Xian Yu, Minggao He, Yan-Lam Lee, Tak‐Wah Lam, Ruibang Luo

ClairS is a deep-learning method for long-read somatic variant calling that outperforms existing tools on synthetic and short-read datasets.

Nature Methods · Jul 1, 2026Peer-reviewedBioinformatics

Clair3-RNA: A deep learning-based small variant caller for long-read RNA sequencing data

Zhenxian Zheng, Xian Yu, Lei Chen, Yan-Lam Lee, Cheng Xin, Angel On Ki Wong, Miten Jain, Rupesh K. Kesharwani, Fritz Joachim Sedlazeck, Ruibang Luo

Clair3-RNA is a deep learning variant caller for long-read RNA sequencing data that achieves high accuracy in SNP detection across different platforms.

Nature Communications · Dec 22, 2025Peer-reviewedBioinformatics

ClairS-TO: A deep-learning method for long-read tumor-only somatic small variant calling

Lei Chen, Zhenxian Zheng, Junhao Su, Xian Yu, Angel On Ki Wong, Jingcheng Zhang, Yan-Lam Lee, Ruibang Luo

ClairS-TO is a deep-learning method for long-read tumor-only somatic variant calling that outperforms existing tools and works with both long-read and short-read data.

Nature Communications · Oct 31, 2025Peer-reviewedBioinformatics

Evaluation of Mycobacterium Tuberculosis enrichment in metagenomic samples using ONT adaptive sequencing and amplicon sequencing for identification and variant calling

Junhao Su, Wui Wang Lui, Yan-Lam Lee, Zhenxian Zheng, G. G. Siu, Timothy Ting-Leung Ng, Tong Zhang, Tommy Tsan‐Yuk Lam, Hiu-Yin Lao, Wing-Cheong Yam, Kingsley King-Gee Tam, Kenneth Siu-Sing Leung, Tak‐Wah Lam, Amy Wing-Sze Leung, Ruibang Luo

This study compares Oxford Nanopore adaptive sequencing and PCR amplicon sequencing for detecting Mycobacterium Tuberculosis in metagenomic samples and calls variants, with an open-source analysis framework.

bioRxiv · Dec 17, 2022 · PreprintBioinformatics