Yueyu Jiang

University of San Diego — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

10h-index893citations26works1.02yr avg
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Research Topics

Genomics and Phylogenetic Studies(16), Genetic diversity and population structure(6), Microbial Community Ecology and Physiology(6), Gut microbiota and health(5), Biomedical Text Mining and Ontologies(4)

Publications26 total

Machine Learning Enables Alignment‐Free Distance Calculation and Phylogenetic Placement Using <i>k</i> ‐Mer Frequencies
Molecular Ecology Resources·2025· 1 citedOpen Access
Machine learning enables alignment-free distance calculation and phylogenetic placement using k-mer frequencies
2025Open Access
Scaling DEPP phylogenetic placement to ultra-large reference trees: a tree-aware ensemble approach
Bioinformatics·2024· 2 citedOpen Access
Author Correction: Generation of accurate, expandable phylogenomic trees with uDance
Nature Biotechnology·2023Open Access
Author Correction: Greengenes2 unifies microbial data in a single reference tree
Nature Biotechnology·2023· 20 citedOpen Access
Greengenes2 unifies microbial data in a single reference tree
Nature Biotechnology·2023· 490 citedOpen Access
Generation of accurate, expandable phylogenomic trees with uDance
Nature Biotechnology·2023· 21 citedOpen Access
Multi-level analysis of the gut–brain axis shows autism spectrum disorder-associated molecular and microbial profiles
Nature Neuroscience·2023· 184 citedOpen Access
Data for article: Generation of accurate, expandable phylogenomic trees with uDANCE
Harvard Dataverse·2023· 1 citedOpen Access
Scaling deep phylogenetic embedding to ultra-large reference trees: a tree-aware ensemble approach
2023· 3 citedOpen Access
Greengenes2 enables a shared data universe for microbiome studies
2022· 42 citedOpen Access
GG2 - Cluster-DEPP Models and Auxiliary data
Zenodo (CERN European Organization for Nuclear Research)·2022Open Access
GG2 - Cluster-DEPP Models and Auxiliary data
2022Open Access
GG2 - Cluster-DEPP Models and Auxiliary data
Zenodo (CERN European Organization for Nuclear Research)·2022Open Access
Learning Hyperbolic Embedding for Phylogenetic Tree Placement and Updates
Biology·2022· 15 citedOpen Access
DEPP: Deep Learning Enables Extending Species Trees using Single Genes
Systematic Biology·2022· 35 citedOpen Access
Phylogenetic Placement Problem: A Hyperbolic Embedding Approach
Lecture notes in computer science·2022· 1 cited
Fast and accurate distance‐based phylogenetic placement using divide and conquer
Molecular Ecology Resources·2021· 41 cited
Data for publication "Fast and Accurate Distance-based Phylogenetic Placement using Divide and Conquer" (APPLES-2)
Zenodo (CERN European Organization for Nuclear Research)·2021Open Access
Data for publication "Fast and Accurate Distance-based Phylogenetic Placement using Divide and Conquer" (APPLES-2)
Zenodo (CERN European Organization for Nuclear Research)·2021Open Access
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Frequent Co-authors

Siavash Mirarab(18), Metin Balaban(13), Qiyun Zhu(13), Daniel McDonald(9), Rob Knight(9), Kalen Cantrell(4), Antonio González(4), Daniel Roush(4), James T. Morton(3), Giorgia Nicolaou(3), Donovan H. Parks(3), Søren Michael Karst(3), Mads Albertsen(3), Philip Hugenholtz(3), Todd Z. DeSantis(3), Se Jin Song(3), Andrew Bartko(3), Aki S. Havulinna(3), Pekka Jousilahti(3), Susan Cheng(3)