| Greengenes2 unifies microbial data in a single reference tree D McDonald, Y Jiang, M Balaban, K Cantrell, Q Zhu, A Gonzalez, ... Nature biotechnology 42 (5), 715-718, 2024 | 180 | 2024 |
| Multi-level analysis of the gut–brain axis shows autism spectrum disorder-associated molecular and microbial profiles JT Morton, DM Jin, RH Mills, Y Shao, G Rahman, D McDonald, Q Zhu, ... Nature neuroscience 26 (7), 1208-1217, 2023 | 101 | 2023 |
| Fast and accurate distance‐based phylogenetic placement using divide and conquer M Balaban, Y Jiang, D Roush, Q Zhu, S Mirarab Molecular Ecology Resources 22 (3), 1213-1227, 2022 | 38 | 2022 |
| Greengenes2 enables a shared data universe for microbiome studies D McDonald, Y Jiang, M Balaban, K Cantrell, Q Zhu, A Gonzalez, ... bioRxiv, 2022.12. 19.520774, 2022 | 31 | 2022 |
| DEPP: deep learning enables extending species trees using single genes Y Jiang, M Balaban, Q Zhu, S Mirarab Systematic Biology, 2022 | 31 | 2022 |
| Learning hyperbolic embedding for phylogenetic tree placement and updates Y Jiang, P Tabaghi, S Mirarab Biology 11 (9), 1256, 2022 | 15 | 2022 |
| Generation of accurate, expandable phylogenomic trees with uDance M Balaban, Y Jiang, Q Zhu, D McDonald, R Knight, S Mirarab Nature biotechnology 42 (5), 768-777, 2024 | 10 | 2024 |
| Author correction: Greengenes2 unifies microbial data in a single reference tree D McDonald, Y Jiang, M Balaban, K Cantrell, Q Zhu, A Gonzalez, ... nature biotechnology 42 (5), 813-813, 2024 | 5 | 2024 |
| Phylogenetic placement problem: A hyperbolic embedding approach Y Jiang, P Tabaghi, S Mirarab RECOMB International Workshop on Comparative Genomics, 68-85, 2022 | 5 | 2022 |
| Scaling deep phylogenetic embedding to ultra-large reference trees: a tree-aware ensemble approach Y Jiang, D McDonald, R Knight, S Mirarab bioRxiv, 2023.03. 27.534201, 2023 | 3 | 2023 |
| Learning by teaching, with application to neural architecture search P Sheth, Y Jiang, P Xie arXiv preprint arXiv:2103.07009, 2021 | 2 | 2021 |
| Scaling DEPP phylogenetic placement to ultra-large reference trees: a tree-aware ensemble approach Y Jiang, D McDonald, D Perry, R Knight, S Mirarab Bioinformatics, btae361, 2024 | 1 | 2024 |
| Author Correction: Generation of accurate, expandable phylogenomic trees with uDance M Balaban, Y Jiang, Q Zhu, D McDonald, R Knight, S Mirarab Nature biotechnology 42 (5), 814-814, 2024 | | 2024 |