John Earls is primarily interested in applying machine learning techniques to biological data. John started studying Computational Biology under Nathan Price at the University of Illinois, where he receive an MS in Bioinformatics from the Computer Science department.
John is a PhD student at University of Washington in the Computer Science and Engineering department.
Mr. Earls has an Erdos number of 4.
Specialties: Python, C/C++, Java, php, SQL, Machine Learning, Statistics, being Awesome, CUDA
Magis, Andrew T., John C. Earls, Youn-Hee Ko, James A. Eddy, and Nathan D. Price. 2011. “Graphics Processing Unit Implementations of Relative Expression Analysis Algorithms Enable Dramatic Computational Speedup.” Bioinformatics (Oxford, England)
27 (6): 872–73. https://doi.org/10.1093/bioinformatics/btr033
Earls, John C., James A. Eddy, Cory C. Funk, Younhee Ko, Andrew T. Magis, and Nathan D. Price. 2013. “AUREA: An Open-Source Software System for Accurate and User-Friendly Identification of Relative Expression Molecular Signatures.” BMC Bioinformatics
Ko, Younhee, Seth A. Ament, James A. Eddy, Juan Caballero, John C. Earls, Leroy Hood, and Nathan D. Price. 2013. “Cell Type-Specific Genes Show Striking and Distinct Patterns of Spatial Expression in the Mouse Brain.” Proceedings of the National Academy of Sciences of the United States of America
110 (8): 3095–3100. https://doi.org/10.1073/pnas.1222897110
Price, Nathan D., Andrew T. Magis, John C. Earls, Gustavo Glusman, Roie Levy, Christopher Lausted, Daniel T. McDonald, et al. 2017. “A Wellness Study of 108 Individuals Using Personal, Dense, Dynamic Data Clouds.” Nature Biotechnology
Ghosh, Dhimankrishna, Cory C. Funk, Juan Caballero, Nameeta Shah, Katherine Rouleau, John C. Earls, Liliana Soroceanu, et al. 2017. “A Cell-Surface Membrane Protein Signature for Glioblastoma.” Cell Systems
4 (5): 516-529.e7. https://doi.org/10.1016/j.cels.2017.03.004
Ament, Seth A., Jocelynn R. Pearl, Andrea Grindeland, Jason St Claire, John C. Earls, Marina Kovalenko, Tammy Gillis, et al. 2017. “High Resolution Time-Course Mapping of Early Transcriptomic, Molecular and Cellular Phenotypes in Huntington’s Disease CAG Knock-in Mice across Multiple Genetic Backgrounds.” Human Molecular Genetics
26 (5): 913–22. https://doi.org/10.1093/hmg/ddx006
Magis, Andrew T., John C. Earls, Gustavo Glusman, Gilbert S. Omenn, Jennifer C. Lovejoy, Nathan D. Price, and Leroy Hood. 2018. “Reply to ‘Precision Medicine in the Clouds.’” Nature Biotechnology
36 (8): 680–82. https://doi.org/10.1038/nbt.4211
Wilmanski, Tomasz, Noa Rappaport, John C. Earls, Andrew T. Magis, Ohad Manor, Jennifer Lovejoy, Gilbert S. Omenn, Leroy Hood, Sean M. Gibbons, and Nathan D. Price. 2019. “Blood Metabolome Predicts Gut Microbiome α-Diversity in Humans.” Nature Biotechnology