Gonzalo Vidal

Postgraduate Reasearcher

Newcastle University

Biography

I’m a postgraduate researcher at Rudge Lab, part of the ICOS interdiscplinary research group from Newcastle University. My research include Synthetic Biology, Genetic Design Automation (GDA), Lab automation, Software Development and Data Standardization.

I’m currently developing a connected and automated DBTL cycle for SynBio using standardized DNA parts, software tools and lab automation in bacteria.

I have leadership positions in different SynBio communities as SBOL Editor, iGEM Engineering Committee, NEUK SynBio Co-chair, and IWBDA 2023 program committee. Previously I participaed as student representative and project leader at IIBMers in Chile.

Interests

Synthetic Biology
Genetic Design Automation
Sofware Development
Data Science
Lab Automation
Data Standardization
Microbiology
Plant Biology
Agriculture

Education

PhD in Computer Science, 2023
Newcastle University
PhD in Biological and Medical Engineering, 2021
Ponthifical Catholic University of Chile
Graduate and Professional degree in Biochemistry, 2019
Ponthifical Catholic University of Chile (Honours)
BSc in Natural and Exact Sciences, 2012
University of Chile (Honours)

Featured Publication

Gonzalo Vidal, Carolus Vitalis, Timothy Rudge

May, 2022 ACS SynBio

LOICA: Integrating Models with Data for Genetic Network Design Automation

Logical Operators for Integrated Cell Algorithms (LOICA), is a Python package for designing, modeling, and characterizing genetic networks based on a simple object-oriented design abstraction.

Skills

DryLab

90%

WetLab

80%

Python

95%

Experience

Intern

SBOL Industrial and Bio-Design Automation Consortium

May 2022 – August 2022 US

Responsibilities include:

Software Development
Liquid handling robot control
Experimental test

Automation and Robotics Technician

Institute for Biological and Medical Engineering

January 2019 – December 2020 Chile

DNA assembly automation. Liquid handling robot setup to perform BASIC and Golden Gate assembly.

Advice, research, project realization.

Monsanto

April 2017 – December 2018 Chile

Water management. Satellital and drone image processing. Determination of Kc in Brassica. Part of the program Sin Limites from Pontificia Universidad Católica de Chile.

Research and Development, Co-founder.

Milandu

April 2016 – June 2019 Chile

Startup in Maule valley, Chile. Water management and remote sensing on amaranth crops.

Projects

Build planning standardization

Build planning standardization for DNA assembly

Corchea

Paper fluidic 3D printed device to grow bacteria.

LOICA

Genetic Network Design Automation and simulation using ODE, ODE with noise, stochastic algorithm and PDE.

Non-equilibrium Polysome Dynamics

Transcription and translation analysis using statistical physics tools like TASEP.

PUDU

Liquid handling robot control for lab automation on synthetic biology workflows.

pyFlapjack

Python package to connect to the Flapjack API for data analysis and management.

XDC

Experimental Data Connector, upload data to SynBioHub and Flapjack.

MiNuD

Semi-Automated Mitochondrial and Nucleoids segmentation and analysis.

Machine Learning Gene Expression Analysis

Machine Learning Gene Expression Analysis.

External Projects

Link to external projects that I participated or lead as student representative at IIBMers, like plant growing automation, use of IoT for lab automation, organization of a conference.