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ORCIDRaphael Gottardo
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2020 – today
- 2023
[c1]Oliver Y. Chén, Duy Thanh Vu, Gilbert Greub, Hengyi Cao, Xingru He, Yannick Muller, Constantinos Petrovas, Haochang Shou, Viet-Dung Nguyen, Bangdong Zhi, Laurent Perez, Jean Louis Raisaro, Guy Nagels, Maarten De Vos
, Wei He, Raphael Gottardo, Palie Smart, Marcus Munafò, Giuseppe Pantaleo:
The Statistical Analysis of the Varying Brain. SSP 2023: 700-704- 2022
- [j22]Bryan T. Mayer, Allan C. deCamp, Yunda Huang, Joshua T. Schiffer, Raphael Gottardo, Peter B. Gilbert, Daniel B. Reeves:
Optimizing clinical dosing of combination broadly neutralizing antibodies for HIV prevention. PLoS Comput. Biol. 18(4) (2022) - 2021
- [j21]William Chad Young, Lindsay N. Carpp, Sidhartha Chaudhury, Jason A. Regules, Elke S. Bergmann-Leitner, Christian Ockenhouse, Ulrike Wille-Reece, Allan C. deCamp, Ellis Hughes, Celia Mahoney, Suresh Pallikkuth, Savita Pahwa, S. Moses Dennison, Sarah V. Mudrak, S. Munir Alam, Kelly E. Seaton, Rachel L. Spreng, Jon Fallon, Ashlin Michell, Fernando Ulloa-Montoya, Margherita Coccia, Erik Jongert, Galit Alter, Georgia D. Tomaras, Raphael Gottardo:
Comprehensive Data Integration Approach to Assess Immune Responses and Correlates of RTS, S/AS01-Mediated Protection From Malaria Infection in Controlled Human Malaria Infection Trials. Frontiers Big Data 4: 672460 (2021) - [j20]Evan Greene, Greg Finak, Leonard A. D'Amico, Nina Bhardwaj, Candice D. Church, Chihiro Morishima, Nirasha Ramchurren, Janis M. Taube, Paul T. Nghiem, Martin A. Cheever, Steven P. Fling, Raphael Gottardo:
New interpretable machine-learning method for single-cell data reveals correlates of clinical response to cancer immunotherapy. Patterns 2(12): 100372 (2021)
2010 – 2019
- 2018
- [j19]Phu Van, Wenxin Jiang, Raphael Gottardo, Greg Finak:
ggCyto: next generation open-source visualization software for cytometry. Bioinform. 34(22): 3951-3953 (2018) - [i1]Evan Greene, Greg Finak, Raphael Gottardo:
Selective Clustering Annotated using Modes of Projections. CoRR abs/1807.10328 (2018) - 2015
- [j18]Mehrnoush Malek, Mohammad Jafar Taghiyar, Lauren Chong, Greg Finak, Raphael Gottardo, Ryan Remy Brinkman:
flowDensity: reproducing manual gating of flow cytometry data by automated density-based cell population identification. Bioinform. 31(4): 606-607 (2015) - [j17]Mélanie Courtot, Justin Meskas, Alexander D. Diehl, Radina Droumeva, Raphael Gottardo, Adrin Jalali, Mohammad Jafar Taghiyar, Holden T. Maecker, J. Philip McCoy, Alan Ruttenberg, Richard H. Scheuermann, Ryan Remy Brinkman:
flowCL: ontology-based cell population labelling in flow cytometry. Bioinform. 31(8): 1337-1339 (2015) - [j16]Paul Thatcher Edlefsen, Morgane Rolland, Tomer Hertz, Sodsai Tovanabutra, Andrew J. Gartland, Allan C. deCamp, Craig A. Magaret, Hasan Ahmed, Raphael Gottardo, Michal Juraska, Connor McCoy, Brendan B. Larsen, Eric Sanders-Buell, Chris Carrico, Sergey Menis, Meera Bose, Miguel A. Arroyo, Robert J. O'Connell, Sorachai Nitayaphan, Punnee Pitisuttithum, Jaranit Kaewkungwal, Supachai Rerks-Ngarm, Merlin L. Robb, Tatsiana Kirys, Ivelin Georgiev, Peter D. Kwong, Konrad Scheffler, Sergei L. Kosakovsky Pond, Jonathan M. Carlson, Nelson Michael, William R. Schief, James I. Mullins, Jerome H. Kim, Peter B. Gilbert:
: Comprehensive Sieve Analysis of Breakthrough HIV-1 Sequences in the RV144 Vaccine Efficacy Trial. PLoS Comput. Biol. 11(2) (2015) - 2014
- [j15]Andrew McDavid, Lucas Dennis, Patrick Danaher, Greg Finak, Michael Krouse, Alice Wang, Philippa Webster, Joseph Beechem, Raphael Gottardo:
Modeling Bi-modality Improves Characterization of Cell Cycle on Gene Expression in Single Cells. PLoS Comput. Biol. 10(7) (2014) - [j14]Greg Finak, Jacob Frelinger, Wenxin Jiang, Evan W. Newell, John Ramey, Mark M. Davis, Spyros A. Kalams, Stephen C. De Rosa, Raphael Gottardo:
OpenCyto: An Open Source Infrastructure for Scalable, Robust, Reproducible, and Automated, End-to-End Flow Cytometry Data Analysis. PLoS Comput. Biol. 10(8) (2014) - 2013
- [j13]Yunda Huang, Raphael Gottardo:
Comparability and reproducibility of biomedical data. Briefings Bioinform. 14(4): 391-401 (2013) - [j12]Andrew McDavid, Greg Finak, Pratip K. Chattopadhyay, Maria Dominguez, Laurie Lamoreaux, Steven S. Ma, Mario Roederer, Raphael Gottardo:
Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments. Bioinform. 29(4): 461-467 (2013) - [j11]Sangsoon Woo, Xuekui Zhang, Renan Sauteraud, François Robert, Raphael Gottardo:
PING 2.0: an R/Bioconductor package for nucleosome positioning using next-generation sequencing data. Bioinform. 29(16): 2049-2050 (2013) - [j10]Greg C. Imholte, Marie-Pier Scott-Boyer, Aurélie Labbe, Christian F. Deschepper, Raphael Gottardo:
iBMQ: a R/Bioconductor package for integrated Bayesian modeling of eQTL data. Bioinform. 29(21): 2797-2798 (2013) - 2012
- [j9]Greg Finak, Wenxin Jiang, Jorge Pardo, Adam Asare, Raphael Gottardo:
QUAliFiER: An automated pipeline for quality assessment of gated flow cytometry data. BMC Bioinform. 13: 252 (2012) - [j8]Kenneth Lo, Raphael Gottardo:
Flexible mixture modeling via the multivariate t distribution with the Box-Cox transformation: an alternative to the skew-t distribution. Stat. Comput. 22(1): 33-52 (2012) - [j7]Francois Caron, Arnaud Doucet, Raphael Gottardo:
On-line changepoint detection and parameter estimation with application to genomic data. Stat. Comput. 22(2): 579-595 (2012) - 2010
- [j6]Arnaud Droit, Charles Cheung, Raphael Gottardo:
rMAT - an R/Bioconductor package for analyzing ChIP-chip experiments. Bioinform. 26(5): 678-679 (2010) - [j5]Greg Finak, Juan-Manuel Perez, Andrew Weng, Raphael Gottardo:
Optimizing Transformations for Automated, High Throughput Analysis of Flow Cytometry Data. BMC Bioinform. 11: 546 (2010)
2000 – 2009
- 2009
- [j4]Greg Finak, Ali Bashashati, Ryan Remy Brinkman, Raphael Gottardo:
Merging Mixture Components for Cell Population Identification in Flow Cytometry. Adv. Bioinformatics 2009: 247646:1-247646:12 (2009) - [j3]Raphael Gottardo, Ryan Remy Brinkman, George Luta, Matthew P. Wand:
Recent Bioinformatics Advances in the Analysis of High Throughput Flow Cytometry Data. Adv. Bioinformatics 2009: 461763:1-461763:2 (2009) - [j2]Kenneth Lo, Florian Hahne, Ryan Remy Brinkman, Raphael Gottardo:
flowClust: a Bioconductor package for automated gating of flow cytometry data. BMC Bioinform. 10 (2009) - 2007
- [j1]Kenneth Lo, Raphael Gottardo:
Flexible empirical Bayes models for differential gene expression. Bioinform. 23(3): 328-335 (2007)
Coauthor Index
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