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Cody Nash

Cody Nash

Bratislava, Bratislava Region, Slovakia
Member since April 11, 2017
Cody has 5+ years of experience developing medical genetic tests—including test design and validation, equipment selection, SOP generation, and regulatory reviews. He has implemented a variety of test methods including NGS, microarray, and quantitative PCR. He also has worked on analytics and pipelines developed in Python, R, Perl, and Excel.
Cody is now available for hire
  • Windows, 10 years
  • Microsoft Excel, 10 years
  • Perl, 5 years
  • Sequence Alignment, 5 years
  • Mathematica, 4 years
  • Python, 1 year
  • IPython Notebook, 1 year
  • Matplotlib, 1 year
Bratislava, Bratislava Region, Slovakia
Preferred Environment
Windows, Ubuntu, Jupyter, Notepad++, RStudio
The most amazing...
...thing was implementing a 104 gene cancer panel for medical testing—including equipment selection, developing the analysis pipeline, validation, and maintenance.
  • Laboratory Director Assistant
    Genetics Center
    2010 - 2016
    • Developed and performed clinical genetic diagnostic laboratory tests.
    • Implemented and maintained data analysis pipelines.
    • Implemented application specific software in a clinical setting.
    • Developed new scripts as well as SQL and HTML interfaces for additional functionality.
    • Performed data analysis using Perl, R, and Excel.
    • Implemented microarray CGH assays for pre- and post-natal diagnosis.
    • Developed custom microarray designs for detection of clinically relevant loss of heterozygosity and exon-level deletions and duplications.
    • Developed a custom bait and capture kit for the 104 gene panel.
    • Implemented DNA sequencing assays using ABI 310, 3130xl, Illumina MiSeq, Ion Torrent PGM, Ion Proton, and Ion S5 instruments.
    • Developed quantitative PCR assays with Taqman and SYBR green methods (using a Roche Lightcycler 480 II instrument).
    • Developed fragment analysis for repeat-expansion disorders.
    • Implemented assays using MLPA, qPCR, RFLP, and Multiplex PCR.
    Technologies: Perl, R, Excel, Ion Torrent PGM/Proton/S5, Illumina MiSeq, Agilent CGH+SNP Arrays
  • Assistant Research Scientist
    California Institute of Technology
    2008 - 2010
    • Designed and led the gravity coring and SCUBA sampling expeditions in the hyper-saline, hyper-alkaline, high-altitude Mono Lake.
    • Extracted DNA from environmental samples then amplified, cloned, and sequenced.
    • Performed phylogenetic analyses with Phylip and ARB.
    • Analyzed samples with low temperature magnetometry and electron paramagnetic resonance spectroscopy.
    • Assisted with isolation of proteins for controlled magnetite precipitation, directed precipitation experiments and analysis.
    • Provided samples, strains, reagents and instruction to other researchers using magnetotactic bacteria.
    Technologies: Phylip, ARB
  • Create Data from Random Noise with Generative Adversarial Networks (Publication)
    Generative adversarial networks, among the most important machine learning breakthroughs of recent times, allow you to generate useful data from random noise. Instead of training one neural network with millions of data points, you let two neural networks contest with each other to figure things out. In this article, Toptal Freelance Software Engineer Cody Nash gives us an overview of how GANs work and how this class of machine learning algorithms can be used to generate data in data-limited situations.
  • Languages
    Python, R, Perl
  • Tools
    Microsoft Excel, Mathematica, Notepad++, Jupyter, IPython Notebook
  • Platforms
    Windows, Docker, AWS EC2, Linux, RStudio, Ubuntu Linux
  • Libraries/APIs
    SciPy, Sklearn, Pandas, NumPy, Matplotlib
  • Other
    Genomics, Bioinformatics, Sequence Alignment, Statistics
  • PhD in Geobiology
    California Institute of Technology - Pasadena, CA, USA
    2001 - 2008
  • Master of Science in Space Science
    International Space University - Strasbourg, France
    2000 - 2001
  • Bachelor of Science in Biology
    Rhodes College - Memphis, TN, USA
    1995 - 2000
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