About Me

Hi, I’m Michael S. Chimenti.

I am a research scientist with 15+ years of broad experience in the fields of bioinformatics, genomics, computational chemistry, and structural biology.  I thrive on projects that combine computational, genomic, and experimental approaches to explore complex scientific questions.

I received my Ph.D. in Biophysics from The Johns Hopkins University in 2009 with Bertrand Garcia-Moreno.  I did a postdoc in the department of Pharmaceutical Chemistry at UCSF with Matt Jacobson and Mark Kelly from 2010-2015.

My educational journey has taken me to both coasts of the United States. Currently, I am very fortunate to have returned to the University of Iowa, my alma mater, more than a decade after I first graduated with a degree in biochemistry.  Now I work as a bioinformaticist, data scientist, and instructor in the Iowa Institute for Human Genetics.


This blog is about topics in the fields of bioinformatics, genomics, data science, and drug discovery that I find particularly interesting or helpful.  Here you might find posts about:

— Using various Python and R tools for scientific programming and data analysis

— Innovative new approaches in genomics/bioinformatics

— Ways to save time in your daily research tasks by taking advantage of automation and scripting


I live in Iowa City with my wife and children.   We enjoy going to the parks, going downtown on the weekends, and visiting family.  I also love to ride mountain bikes and play jazz saxophone.

Please feel free to contact me through my Linkedin page or through my University of Iowa email (publicly available through a google search).

***Disclaimer (2019): views and opinions expressed in this blog are my own, and do not necessarily represent those of the University of Iowa.  All rights are reserved, I am the sole copyright owner of the original material herein.***

6 Replies to “About Me”

  1. Hi Michael,

    My name is Anuj Agarwal. I’m Founder of Feedspot.

    I would like to personally congratulate you as your blog Michael S. Chimenti, PhD has been selected by our panelist as one of the Top 75 Bioinformatics Blogs on the web.

    http://blog.feedspot.com/bioinformatics_blogs/

    I personally give you a high-five and want to thank you for your contribution to this world. This is the most comprehensive list of Top 75 Bioinformatics Blogs on the internet and I’m honored to have you as part of this!

    Also, you have the honor of displaying the badge on your blog.

    Best,
    Anuj

  2. Thank you for your informative and helpful blog. I was wondering whether you could explain how the grep “PASS” works on mutect2 vcf files that you recommend as part of the code for converting vcf files to Oncotator format. I am new to this area and thought that mutect 2 vcf files have a dot instead of PASS in their annotations. Is that correct?

  3. Dear Michael,
    This is Xiaorong Ding, a postdoc at University of Oxford. I am writing to ask if we can get your permission to use the Figure of your blog “Are deep neural nets “Software 2.0”?” (https://www.michaelchimenti.com/2017/11/deep-neural-nets-software-2-0/), for a book chapter “Machine Learning Techniques for Cuffless Blood Pressure Estimation”?
    Your permission would be of great help for the publication of this book chapter, and I very much look forward to hearing from you!
    With many thanks,
    Xiaorong

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