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  • Tentative Thesis Plan Towards PHD: by Ardic Arikal

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    Ardic Arikal has outlined a tentative thesis plan spanning July 2017 to June 2018. The plan involves learning Python programming and data science skills from online courses between July and November 2017. From September 2017 to November 2017, the focus is on gaining experience using Cobra.py and other Python packages for flux balance analysis by reproducing results from two papers. From October 2017 to June 2018, experimental work is planned involving S. cerevisiae fermentations to collect metabolic rate data, along with using large S. cerevisiae models to predict experimental outputs and evaluating progress towards a PhD thesis.

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    Ardic Arikal has outlined a tentative thesis plan spanning July 2017 to June 2018. The plan involves learning Python programming and data science skills from online courses between July and November 2017. From September 2017 to November 2017, the focus is on gaining experience using Cobra.py and other Python packages for flux balance analysis by reproducing results from two papers. From October 2017 to June 2018, experimental work is planned involving S. cerevisiae fermentations to collect metabolic rate data, along with using large S. cerevisiae models to predict experimental outputs and evaluating progress towards a PhD thesis.

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    4 views2 pages

    Tentative Thesis Plan Towards PHD: by Ardic Arikal

    Uploaded by

    ArdicArikal
    Ardic Arikal has outlined a tentative thesis plan spanning July 2017 to June 2018. The plan involves learning Python programming and data science skills from online courses between July and November 2017. From September 2017 to November 2017, the focus is on gaining experience using Cobra.py and other Python packages for flux balance analysis by reproducing results from two papers. From October 2017 to June 2018, experimental work is planned involving S. cerevisiae fermentations to collect metabolic rate data, along with using large S. cerevisiae models to predict experimental outputs and evaluating progress towards a PhD thesis.

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    Tentative Thesis Plan

    Towards PhD
    by
    Ardic Arikal
    July 15-August 31 2017
    - Learn basics of python programming: EdX will be used to start learning the basics and fundamentals of python
    programing. Possible courses to follow are Introduction to CS with Python, Introduction to Python for absolute
    beginners.
    - Learn to use python to tackle data science problems: Datacamp (Intro to python for data science), EdX (Introduction to
    python for data science) and Coursera (Applied data science with Python Specialization) websites will be used.

    September 1-November 30 2017


    - Gain experience working with Cobra.py and other python packages used in flux balance analysis.
    - Reproduce results from Sainz (Sainz, Pizarro et al. 2003) and Pizarro (Pizarro, Varela et al. 2007) papers.
    - Start getting familiar with the software (EDD and Arrowland) prepared by JBEI if it is released.

    October 31 2017- June 30 2018


    - Carry out Saccharomyces cerevisiae fermentations to measure uptake or production rates of important metabolites for
    future flux balance analyses.
    - Start experimenting with large Saccharomyces cerevisiae metabolic models to try predicting the experimental outputs.
    - Decision point: Do I have enough progress towards my PhD thesis ?

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