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Yoav Ram

I'm a Postdoc at the Hadany Lab at the Faculty of Life Sciences in Tel-Aviv University.
During Fall of 2016 I will begin start a CEHG Postdoc fellowship at the Feldman Lab in Stanford University.

I completed my Ph.D. during 2016 in a direct Ph.D program. with Prof. Lilach Hadany at Tel-Aviv University.
I received a M.Sc in Theoretical and Computational Biology in 2012 during the direct Ph.D. program.
I earned a B.Sc. in Biology and Mathematics magna cum lauda in 2010 at Tel-Aviv University.

I developed a theoretical basis to explain the evolutionary origin of stress-induced mutagenesis and study its effect on adaptation. My results show that stress-induced mutagenesis is favored by natural selection in asexual organisms (Ram and Hadany 2012) and that it increases the ability of populations to evolve complex adaptations, without jeopardizing their ability to remain adapted to stable environments (Ram and Hadany 2014). This suggests that stress-induced hypermutation should be common in bacteria and other asexual organisms and that it plays an important role in adaptive evolution.

My research adds to the ongoing shift in our understanding of mutation—one of the basic forces of evolution. Contrary to the classical view of mutation as an inevitable copying error, kept at bay by accurate replication and error-correction mechanisms, it becomes increasingly evident that mutation rates are controlled and regulated. These results have important implications for many fields in the medical and life sciences, including epidemiology, oncology, ecology, and evolutionary biology.

CV:


Publications:

In preparation & preprints:

  • Ram Y., Dellus-Gur E., Obolski U., Bibi M., Berman J., and Hadany L. 2015. Predicting competition results from growth curves. bioRxiv. DOI: 10.1101/022640
  • Ram, Y., and Hadany, L. Condition-dependent sex: who does it, when, and why?. Submitted.
  • Obolski, U., Lewin-Epstein, O., Even-Tov, E., Ram, Y., and Hadany, L. With a little help from my friends: Cooperation can accelerate crossing of adaptive valleys. Submitted. Preprint available, DOI: 10.1101/062323.
  • Geffen, E., Hadany, L., Ram, Y., and Gafny, S. Genetic diversity in edge populations: A complementary view. Submitted.

Software & Datasets:

  • Ram Y., Hadany L. (2014) Data from: Stress-induced mutagenesis and complex adaptation. Dryad Digital Repository. DOI: 10.5061/dryad.3066j.
  • Ram, Y., Hadany, L. (2014) proevolution simulation: Version Charles. ZENODO. DOI: 10.5281/zenodo.11401 | GitHub
  • Ram, Y., Guiejman, A. and Hadany L. (2014). proevolution simulation: Version DobzhanskyZENODO. DOI: 10.5281/zenodo.11400 | GitHub

Presentations:

  • How to Study Evolution using Scientific Python - contributed talk at the first PyCon Israel 2016, Tel-Aviv, Israel, May 2 - 3, 2016.
  • The Evolution of Stress-Induced Mutagenesis - seminar at the Department of Biology and the Environment, Faculty of Natural Sciences, University of Haifa-Oranim, May 22, 2016.
  • PhD seminar at the Department of Molecular Biology and Ecology of Plants, Tel-Aviv University, April 6, 2016.
  • The Population Genetics of Stress-Induced Mutation - seminar at the IGC, Portugal, January 14, 2016.
  • From growth to fitness: predicting competition results from growth curves - Poster at the first Pearl Seiden International meeting in Life Sciences, Technion, Haifa, Israel, December 9 - 10, 2015.
  • Predicting competitions from growth curves - Oral presentation at the Gordon Research Conference on Biological Mechanisms in Evolution, Stonehill College, Easton, MA, USA, June 28 - July 3.
  • Stress-induced mutagenesis & complex adaptation - Poster at the Forecasting Evolution? SFB 680 conference in Lisbon, Portugal, July 8 - 11.
  • The Population Genetics of Stress-Induced Mutation - seminar at the IST, Austria, June 25, 2015.
  • Oral presentation at the Quantitivate and Evolutionary Biology Seminar, Tel-Aviv University, March 25. 
  • Stress-induced mutagenesis & complex adaptation - Short oral presentation at the Two2Many Systems Biology Conference, Weizmann Institute, March 12.
  • On the role of stress-induced mutagenesis in evolution - Poster at the Israeli Genetics Society annual meeting, Weizmann Institute, February. 
  • On the role of stress-induced mutagenesis in evolution - Poster at ISM (Israel Society for Microbiology) annual meeting, Haifa, April 7 2014. 
  • Stress, mutation, evolution, and mathematical models - Presentation at the Astrophysics student journal club at Tel-Aviv University, March 2014
  • Modeling the evolution of the mutation rate - Presentation at the Topics in Theoretical and Mathematical Biology Seminar at Tel-Aviv University, March 2014
  • The rate of complex adaptation with and without stress-induced mutagenesis - Poster at FISEB/ILANIT 2014, Eilat, February 2014
  • Seminar presentation at the Pupko Lab at Tel-Aviv University, November 2013 
  • Seminar presentation at the Philisophy of Biology Group at the Humanities Faculty, Tel-Aviv University, October 2013
  • Adaptability, Adaptedness and Stress-Induced Mutagenesis - Poster at PDEs and Dynamical Systems in Biology conference in Bar-Ilan University, October 2013
  • Adaptability, Adaptedness and Stress-Induced Mutagenesis - Poster at ESEB 2013 in Lisbon, Portugal, August 2013
  • Stress-induced mutagenesis and the evolution of complex traits - Poster at the Gordon Research Conference on Biological Mechanisms in Evolution, Stonehill College, Easton, MA, USA, June 2013
  • The Role of Stress-Induced Mutation in the Emergence of Complex Adaptations - Oral presentation at the 5th Annual SIDEER symposium, Sede Boqer Campus, March 20, 2013
  • Evolutionary Causes and Consequences of Stress-Induced Hypermutation - Oral presentation at  "The 1st Graduate Students' Conference in Genetics, Genomics and Evolution", The Ben-Gurion University of the Negev, September 23, 2012 DOI: 10.6084/m9.figshare.96049
  • Seminar presentation at the Pilpel Lab at the Weizmann Institute of Science, June 2009 
  • The Evolution of Stress-Induced Mutagenesis in Finite and Infinite Populations - Oral presentation at PopGroup45 in Nottingham, UK, January 2012. DOI: 10.6084/m9.figshare.95939
  • Seminar presentation at the Eldar lab at Tel-Aviv University, December 2011 
  • Presentation at the Department of Molecular Biology and Plants M.Sc. Seminar at Tel-Aviv University, November 2011
  • Rise and Fall of Mutator Bacteria - presentation at the BioMath Student Journal Club, Tel-Aviv University, May 2011. DOI: 10.6084/m9.figshare.95940
  • The Evolution of Stress-Induced Hypermutation - Poster presentations at ESEB 2011 in Tubingen, Germany; SMBE 2010 in Lyon, France; and MMSB in 2010 in Tel-Aviv, Israel. See F1000 Posters 2011, 2: 1484.

Awards:

Reviews:

Teaching: 

Public Outreach:
  • Publications:
    • Even-Tov, E., Obolski, U., Gueijman, A., Ram, Y., Hadany, L. (2010) The evolutionary riddle of sexual reproduction. Galileo, an Israeli journal for popular science: June, 32-41.
  • Presentations:

Tools:

    FGM

  • Plato - tiny web app to design microplates and download them as a CSV
  • Markx - a scholarly Markdown editor with support for math, code highlighting, citations, and conversions to PDF and DOCX.
  • Google Scholar search bookmarklet 
  • Mendeley Android Importer - an android app for importing citations from the mobile browser to Mendeley reference manager
  • Frodo - a web server for monitoring Sun Grid Engine clusters
  • Highlight - a web app that highlights Python code with the coloring scheme of IDLE 

Languages:

  • עברית (Hebrew), English, some Español
  • Python with NumPy, SciPy, Pandas, Matplotlib, IPython/Jupyter, Seaborn, Flask
  • R with ggplot2, plyr, vegan
  • Java with Colt, Spring AOP, Guava, Apache-Commons
  • C/C++, Perl, C#, Matlab, Wolfram Mathematica, JavaScript, PHP, Pandoc, MySQL, MongoDB, Markdown, LaTeX
  • Git, Mercurial, SVN, Heroku
  • Windows, Linux, Android, Raspberry Pi

Links: