Author

Yuanyuan Qi

University of Illinois Urbana-ChampaignORCID 0009-0002-9871-7415Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:phylogenetics / evolution· 2 Approach:statistical model· 2 Approach:deep learning· 1 Organism:mouse· 1 Assay:whole-exome sequencing· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Henri SchmidtiD· 2 shared Mohammed El-KebiriD· 2 shared Benjamin J. RaphaeliD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

3 top collaborators · 3 mutual co-author links

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2 shared papersCancer Biology

Henri SchmidtORCID

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2 papers

Recent·Most cited

Cancer BiologyAlgorithms for Molecular BiologyPeer-reviewedFeb 18, 2026

Sapling: Inferring and Summarizing Tumor Phylogenies from Bulk Data using Backbone Trees

Yuanyuan Qi, Henri Schmidt, Mohammed El-Kebir

Sapling infers and summarizes tumor phylogenies from bulk data using backbone trees, demonstrating high-quality results on simulated and real data.

2 citations

whole-exome sequencingdeep learning

𝕏 PostBluesky

BioinformaticsBioinformaticsPeer-reviewedJul 1, 2025

Fast tumor phylogeny regression via tree-structured dual dynamic programming

Henri Schmidt, Yuanyuan Qi, Benjamin J. Raphael, Mohammed El-Kebir

The paper introduces fastppm, a fast tool for solving the regression problem in tumor phylogeny reconstruction, achieving significant speedups and accuracy improvements.

2 citations

mousewhole-genome sequencing

𝕏 PostBluesky