Student Projects




Gina M. Cannarozzi, Ph. D.
Tel: +41 1 311 5805
URL http://www.cannarozzi.com/
American, Swiss, two children.


Scientist with advanced skills in designing and testing algorithms for computational biology, conducting and organizing research, writing, publishing, editing, supervising student work, lecturing and developing educational materials. Current research focus: molecular-based crop improvement, next generation sequencing, transcriptional regulation, codon-based models of evolution and statistical analysis of codon usage


Senior Research Associate (Oberassistent) (3/11 - present): group of Zerihun Tadele and Cris Kuhlemeier, Institute of Plant Sciences, University of Bern, Bern Switzerland

  • Assembly and annotation of a plant (Eragrostis tef) genome and transcriptomes,
  • Identification of improvement targets using RNASeq and miRNA sequencing
  • Analysis of ITRAQ quantitative mass spectrometry data

Senior Research Associate (Oberassistent) (7/00 - 6/10):
group of Professor G. H. Gonnet, Department Informatik, ETH Zurich, Switzerland.

  • Advised Masters and bachlors students in their thesis works- specific topics: Framework for simulation and evaluation of algorithmic trading in a distributed environment, Codon Mutation Matrices, Synonymous Codon Mutation Matrices and their use as a Molecular Clock, Use of Codon Mutation Matrices to Detect Periods of Rapid Evolution, Construction of Phylogenetic Trees from Indels in Multiple Sequence Alignments, Codon Usage Bias in Secondary Structure and at Domain Boundaries, Phylogenetic Tree Construction using Genetic Algorithms
  • Developed libraries for the Darwin software system (Darwin is an interpreted programming language tailored to solving problems in bioinformatics)
  • Developed algorithms for phylogenetic tree construction
  • Developed tools for evolutionary analysis (detecting periods of rapid evolution and displaying them on a phylogenetic tree)

Postdoctoral Associate (10/96 - 12/99):
Laboratory of Professor S. A. Benner,
Biochemistry Division, Chemistry Department. University of Florida, Gainesville, Florida.

  • Used evolutionary information to predict protein secondary and tertiary structure
  • Refined heuristics used for protein secondary structure prediction
  • Developed tools for the automatic evalutation of protein secondary structure prediction
  • Maintained internet prediction server

Consultant (12/95 - 12/99):
PERL programming and system administration for international Internet service provider
Zytek Communications Corporation, Paris, France.
Stephen Melvin, Ph.D.

  • Administered system users
  • Used PERL for programming of internet server analysis tools

Postdoctoral Associate (4/95 - 10/96):
Study of Asymmetry in Artificial Membranes with 31P and 2H NMR
Laboratoire de Professeur Philippe Devaux (33 1) 44 27 60 98
Institut de Biologie Physico-Chimique, Paris, France

Graduate Studies: Ph.D. in Chemistry (April 1995):
University of California, San Diego, San Diego, California, USA. April 1995
Thesis: Deuterium NMR Study of the Conformation and Motion of n-Alkanes in Urea Inclusion Compounds by Nuclear Spin Relaxation
Thesis Advisor: Professor Regitze R. Vold in the Department of Chemistry and Biochemistry at the University of California, San Diego.

  • Extensively used 2H NMR techniques (relaxation, lineshapes) to study molecular motion in solids and ordered systems
  • Used solid state 13C and 31P NMR under CP/MAS conditions to measure interatomic distances
  • Programmed in FORTRAN and C, used UNIX, DOS, Windows and Macintosh
  • Assisted general, physical and analytical chemistry laboratory and lecture courses
  • Used molecular dynamics calculation for analysis of alkane motion
  • Administered UNIX systems
  • Used and maintained Chemagnetics, Tecmag, and Nicolet, and Bruker Spectrometers

M.S. in Chemistry, University of California, San Diego, March 1990

B.S. in Chemistry, University of Central Florida , Orlando, Florida, USA, June 1988
Research Assistant (1/87 - 5/88):
University of Central Florida , Orlando (Professor Seth Elsheimer) Synthesis of isoxazolidines


Molecular Plant Biology, University of Bern, Spring 2014 - 2015
EMS mutagenesis, Designing Screens and Ploidy in Whole Genome Sequencing Workshop October 1st and 2nd 2015
Transcriptome denovo assembly and comparison June 18, 2014 in NGS genome & transcriptome assembly and analysis link
Computational Biology, Computer Science Department, ETH Zurich, yearly, Fall 2000 - 2009
Bioinformatics II, Computer Science Department, ETH Zurich, yearly, Spring 2005 to 2010
Computational Biology, Computer Science Dept., University of Basel, yearly from 2005-2006
Post-genomic Science, Chemistry Department, University of Florida, 1998
Assisted many General, Physical and Analytical Chemistry lectures and labs, 1990-1995


European Science Foundation Travel Award, February 2010, 1478 Euros SIB Poster award, SIB Days, Montreux, February, 2010 Intelligent Systems in Molecular Biology Highlights talk "A phylogenetic study of human, dog and mouse", July 2008 American Society for Engineering Education Postdoctoral Fellowship 1995
National Institute of Health Postdoctoral Fellowship 1995
Outstanding Teaching Award 1993-1994
Dow Chemical Scholarship 1984-1988
Florida Undergraduate Scholarship 1985 - 1988


English (mother tongue), German (intermediate, B2), French (intermediate)

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