Julia Fukuyama

According to our database, Julia Fukuyama authored at least 10 papers between 2012 and 2026.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2026

A comparative analysis of machine learning models in SHAP analysis.

Justin Lin, Julia Fukuyama

CoRR, April, 2026

2025

SHAP-Based Supervised Clustering for Sample Classification and the Generalized Waterfall Plot.

Justin Lin, Julia Fukuyama

CoRR, October, 2025

DRtool: An Interactive Tool for Analyzing High-Dimensional Clusterings.

Justin Lin, Julia Fukuyama

CoRR, September, 2025

Nucleotide context models outperform protein language models for predicting antibody affinity maturation.

Mackenzie M. Johnson, Kevin Sung, Hugh K. Haddox, Ashni A. Vora, Tatsuya Araki, Gabriel D. Victora, Yun S. Song, Julia Fukuyama, Frederick A. Matsen IV

PLoS Comput. Biol., 2025

2024

Calibrating dimension reduction hyperparameters in the presence of noise.

Justin Lin, Julia Fukuyama

PLoS Comput. Biol., 2024

2023

A convenient correspondence between k-mer-based metagenomic distances and phylogenetically-informed β-diversity measures.

Hongxuan Zhai, Julia Fukuyama

PLoS Comput. Biol., January, 2023

2022

Local biplots for multidimensional scaling, with application to the microbiome.

Julia Fukuyama

J. Comput. Graph. Stat., July, 2022

2017

Multidomain analyses of a longitudinal human microbiome intestinal cleanout perturbation experiment.

Julia Fukuyama, Laurie Rumker, Kris Sankaran, Pratheepa Jeganathan, Les Dethlefsen, David A. Relman, Susan P. Holmes

PLoS Comput. Biol., 2017

2016

Reproducible Research Workflow in R for the Analysis of Personalized Human Microbiome Data.

Benjamin J. Callahan, Diana Proctor, David A. Relman, Julia Fukuyama, Susan P. Holmes

Proceedings of the Biocomputing 2016: Proceedings of the Pacific Symposium, 2016

2012

Comparisons of Distance Methods for Combining Covariates and Abundances in Microbiome Studies.

Julia Fukuyama, Paul J. McMurdie, Les Dethlefsen, David A. Relman, Susan P. Holmes

Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012