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JEREMY HADIDJOJO (510)-604-5316
[email protected] 4485C Randall Lab, 450 Church St, Ann Arbor, MI 48109-1040 PROFILE • Computational physics, expertise in mathematical modeling, simulation and data analysis • Extensive experience in: scientific programming (MATLAB, Python, C++, parallel/GPU/HPC computing) machine learning (SVM, neural networks, clustering, regression analysis, decision trees, PCA) interdisciplinary collaboration (biologists,
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mathematicians, computer scientists, engineers) scientific communication across disciplines and to non-scientific audiences • Passion in research, coding, validating algorithms for machine learning and data science • Strong analytical skills, able to derive and understand complex math behind algorithms/models • Passion in exploring new technologies, especially in machine learning/data science EDUCATION University of Michigan, Ann Arbor August 2011 – present Ph.D. in Physics, GPA 3.8/4.0, graduating May 2017 Nanyang Technological University, Singapore 2007 – 2011 B.Sc. in Physics with first-class Honours, Minor in Mathematics, GPA: 4.8/5.0 PROGRAMMING SKILLS & PROJECTS Advanced: MATLAB, Mathematica, C/C++ Intermediate: OpenMP, Python (NumPy, SciPy, TensorFlow, SciKit-Learn, Panda, Cython)
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Beginner: Theano, Embedded programming (Arduino, STM32F4) 1. Deep Learning of handwritted digits (MATLAB, Python)
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2016 Coded from scratch object-oriented convolutional network in MATLAB, tested with MNIST hand- written digit data.
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Reaches 99.4% accuracy with Python + Theano (GPU computing) 2. Large-scale cell mechanics simulation (C++) 2012 – present Physical simulation of 2D tissue capable of handling 10,000+ cells. Written in object-oriented C++ with 25,000+ lines of code using (1) GSL for ODE integration, (2) BLAS/LAPACK for fast linear algebra, and (3) OpenMP for parallel
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GPU), and second is Python calling compiled C++ routines (parallel OpenMP). RESEARCH EXPERIENCE New
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mechanism of planar cell chirality 2012 – present • Devised a new framework of generating planar cell chirality through
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protein interaction Developed mathematical model (pen & paper, Mathematica), performed numerical anal- ysis (MATLAB)
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computation. MATLAB used for pre/post-processing and GUI. 3. High-performace timeseries analysis (MATLAB, Python, C++) 2013 – present Developed highly-optimized codes for fast timeseries correlation. First version is MATLAB (parallel,
and simulation (C++ with BLAS/LAPACK, OpenMP) Pattern formation of retinal cone photoreceptors 2012 – present • Uncovered mechanisms that made patterns in zebrafish retina (published in PLoS ONE 2014) Developed physical model based on experimental data, performed statistical analyses and numerical simulation, and made prediction based on model. Statistical analysis of noisy timeseries cell trajectories 2013 – presentt • Searched for non-trivial correlation and causality between large timeseries of cell movement Analyzed big data (terabytes), applied advanced statistical methods and machine learning (SVM, clutering, mean-shift)
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PUBLICATIONS Hadidjojo J, Salbreux G, Lubensky DK (2017) Spontaneous Chiral Symmetry Breaking in Planar Polarized Epithelia, Physical Review Letters (in preparation) Nagashima M, Hadidjojo J, Barthel LK, Lubensky DK, Raymond PA (2017) Anisotropic Glial Scaf- folding Shapes a Multiplex Photoreceptor Mosaic in Zebrafish Retina, eLife (submitted)
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Ultraviolet-Sensitive Cones, PLoS ONE Hadidjojo J, Cheong SA (2011) Equal Graph Partitioning on Estimated Infection
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Network as an Effective Epidemic Mitigation Measure, PLoS ONE CONFERENCES AND WORKSHOPS Big Data Image
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Raymond PA, Hadidjojo J, et al. (2014) Patterning the Cone Mosaic Array in Zebrafish Retina Requires Specification of
Processing & Analysis Workshop (UC Irvine) 2016 Americal Physical Society (APS) March Meeting 2016 2016 Contributed talk: Planar Cell Chirality (PCC) from spontaneous symmetry breaking EMBO Multi-level Modeling of Morphogenesis Workshop (John Innes Centre, UK) 2015 AWARDS & FELLOWSHIPS Physics Department Graduate Fellowship August 2013 Awarded to 3 students based on past research and academic performance Norman E. and Mary E. Barnett Graduate Fellowship January 2012 Awarded to 1 student in early PhD based on past research and academic performance Physics
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Department Graduate Fellowship August 2011 Awarded to select incoming graduate students with outstanding
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undergraduate work RELEVANT CLASSES EECS 545: Statistical Machine Learning Fall 2015 Mathematics 630: Applied
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Stochastic Processes (audit) Fall 2014 Complex Systems 541: Nonlinear Dynamics Fall 2012 Complex Systems 510: Intro to Adaptive Systems Fall 2012 Physics 510: Statistical Mechanics Fall 2011 Complex Systems 535: Network Theory Fall 2011 HOBBIES AND OTHER ACTIVITIES Photography, drone/quadcopter building and flying, electronics (Arduino), DIY in general. Current spare-time project: tinkering with TensorFlow and Hadoop. (https://docslide.com.br/documents/012517-resumejh-amex-ds-ml.html)
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JEREMY HADIDJOJO (510)-604-5316
[email protected] 4485C Randall Lab, 450 Church St, Ann Arbor, MI 48109-1040 PROFILE • Computational physics, expertise in mathematical…
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