RGLab
Raphael Gottardo's Research Lab
About us
We are part of the Vaccine and Infectious Disease Division of Fred Hutch in Seattle. We develop statistical methods and software tools for the analysis of high throughput biological data with an emphasis on immunology and vaccine research. We work with bench scientists and clinicians to understand and ultimately help develop vaccines and/or cure severe diseases such HIV, malaria and cancer.
Members
| Name | Position | Links |
|---|---|---|
| Raphael Gottardo | Principal Investigator | Github, Twitter |
| Robert Amezquita | Postdoctoral Fellow | Github, Twitter |
| Dror Berel | Systems Analyst/Programmer | Github |
| Lev "Leo" Dashevskiy | Systems Analyst/Programmer | Github |
| Mukta Dutta | Postdoctoral Fellow | |
| Greg Finak | Senior Staff Scientist | Github, Twitter |
| Evan Greene | Postdoctoral Fellow | Github |
| Gil Guday | Undergraduate Intern | Github |
| Evan Henrich | Systems Analyst/Programmer | Github |
| Greg Imholte | PhD Student | Github |
| Mike Jiang | Systems Analyst/Programmer | Github |
| Ju Yeong Kim | Systems Analyst/Programmer | Github, Twitter |
| Sam Koelle | PhD Student | Github |
| Amit Meir | PhD Student | Github |
| Carl Murie | Systems Analyst/Programmer | Github |
| Lindsey Mwoga | Executive Assistant | |
| Phu Van | Systems Analyst/Programmer | Github |
| Valentin Voillet | Postdoctoral Fellow | Github |
| Lauren Wolfe | Systems Analyst/Programmer | Github |
| Chad Young | Data Scientist | Github |
From left to right: Jingyuan, Lynn, Mike, Sangsoon, Phu, Renan, Jacob, Leo, Raphael, Greg F., and Masanao.
Selected Publications
The contribution of cell cycle to heterogeneity in single-cell RNA-seq data
McDavid, A. et al.
Nat. Biotechnol. 2016; 34:591–593.
PMID: 27281413
MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data
Finak, G. et al.
Genome Biol. 2015; 16:278.
PMID: 26653891
COMPASS identifies T-cell subsets correlated with clinical outcomes
Lin, L. et al.
Nat Biotechnol. 2015; 33:610-616.
PMID: 26006008
Orchestrating high-throughput genomic analysis with Bioconductor
Huber, W. et al.
Nat Methods. 2015; 12:115-121.
PMID: 25633503
Critical assessment of automated flow cytometry data analysis techniques
Aghaeepour, N. et al.
Nat. Methods. 2013; 10:228-238.
PMID: 23396282
Alumni
| Name | Current Position |
|---|---|
| Xuekui Zhang | Assistant Professor and Canada Research Chair, University of Victoria |
| Luke Bornn | Assistant Professor, Simon Fraser University and Vice President, Strategy and Analytics Sacramento Kings |
| Francois Caron | Associate Professor, Oxford University |
| Xiaohui Chen | Assistant Professor, University of Illinois at Urbana-Champaign |
| Jingyuan Deng | Data Scientist, Expedia |
| Arnaud Droit | Associate Professor, Université Laval |
| Jacob Frelinger | Site Reliability Engineer, Google |
| Lynn Lin | Assistant Professor, Pennsylvania State University |
| Kenneth Lo | Data Scientist, Apple |
| Andrew McDavid | Assistant Professor, University of Rochester |
| Kaida Ning | Biostatistician, Yale University |
| Eloi Mercier | Computational Biologist, BC Cancer Agency |
| John Ramey | Principal Data Scientist, Novilabs |
| Renan Sauteraud | PhD Student, Pennsylvania State University |
| Marie-Pier Scott-Boyer | Postdoctoral Fellow, University of Trent |
| Kevin Ushey | Data Scientist, RStudio |
| Sangsoon Woo | Statistical Geneticist, Axio Research |
| Masanao Yajima | Associate Professor of Practice, Boston University |