Author

Yiqian Duan

Fudan UniversityORCID 0000-0002-8046-9831Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3 Microbiology· 2

Signature Assays, Organisms & Methods

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Assay:metagenomics· 5 Research Focus:database / resource· 3 Organism:bacteria (other)· 2 Approach:deep learning· 2 Approach:statistical model· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Luis Pedro CoelhoiD· 4 shared Anna CuscóiD· 2 shared Célio Dias Santos JúnioriD· 2 shared Chengkai ZhuiD· 2 shared Juan Salvador Inda-DíaziD· 2 shared Ulrike LöberiD· 2 shared Xing-Ming ZhaoiD· 2 shared Alex ChklovskiiD· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 28 mutual co-author links

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4 shared papersBioinformatics

Luis Pedro CoelhoORCID

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Author profile →

5 papers

Recent·Most cited

The elusive resistome: a global comparison reveals large discrepancies among detection pipelines

Juan Salvador Inda-Díaz, Faith Adegoke, Ulrike Löber, Víctor Hugo Jarquín‐Díaz, Yiqian Duan, Johan Bengtsson‐Palme, Svetlana Ugarcina Perovic, Luis Pedro Coelho

The paper compares ARG detection pipelines and finds large discrepancies in reported ARG counts and composition across different habitats.

bioRxiv · May 12, 2026 · PreprintBioinformatics

Long-read metagenomic sequencing reveals novel lineages and functional diversity in urban soil microbiome

Yiqian Duan, Anna Cuscó, Yaozhong Zhang, Juan Salvador Inda-Díaz, Chengkai Zhu, Alexandre Areias Castro, Xinrun Yang, Jiabao Yu, Gaofei Jiang, Xing-Ming Zhao, Luis Pedro Coelho

The paper uses long-read metagenomic sequencing to analyze urban soil samples, revealing novel microbial lineages and extensive functional diversity.

bioRxiv · Mar 21, 2026 · PreprintBioinformatics

A global deep-sea small protein atlas reveals a reservoir of noncanonical antimicrobial peptides

Qiuyun Jiang, Yingchun Han, Chuxiao Ye, Yiqian Duan, Fang Li, Zhuang Han, Célio Dias Santos Júnior, Zhouqing Luo, Xiyang Dong

The paper constructs a deep-sea small protein atlas, identifies noncanonical antimicrobial peptides, and demonstrates their antimicrobial efficacy and non-lytic mechanisms.

bioRxiv · Dec 16, 2025 · PreprintMicrobiology

Capturing global pet dog gut microbial diversity and hundreds of near-finished bacterial genomes by using long-read metagenomics in a Shanghai cohort

Anna Cuscó, Yiqian Duan, Fernando Gil, Alex Chklovski, M Nithya Kruthi, Shaojun Pan, Sofia Kirke Forslund, Susanne Lau, Ulrike Löber, Xing-Ming Zhao, Luis Pedro Coelho

The paper uses long-read metagenomics to analyze pet dog gut microbiomes, generating high-quality MAGs and identifying antimicrobial resistance elements in a Shanghai cohort.

bioRxiv · Sep 17, 2025 · PreprintMicrobiology

A catalogue of small proteins from the global microbiome

Yiqian Duan, Célio Dias Santos Júnior, Thomas Schmidt, Anthony Fullam, Breno Livio Silva de Almeida, Chengkai Zhu, Michael Kuhn, Xing‐Ming Zhao, Peer Bork B, Luis Pedro Coelho

The paper constructs a global microbial small ORFs catalogue and identifies a tool for annotating small proteins in microbial genomes.

Nature Communications · Aug 30, 2024Peer-reviewedBioinformatics