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Profile Details
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USD 80 /hr
Hire Ben S.
Spain
USD 80 /hr

Senior Computational R&D Scientist | Modeling/Simulation/Optimization/ML

Profile Summary
Subject Matter Expertise
Services
Writing Technical Writing
Research Scientific and Technical Research
Consulting Scientific and Technical Consulting
Data & AI Predictive Modeling, Algorithm Design-Non ML, Algorithm Design-ML, Data Visualization, Data Processing
Product Development Reverse Engineering
Work Experience

Solo Founder

Small Startup Founder

January 2025 - January 2026

Postdoctoral Fellow

Donostia International Physics Center

September 2023 - July 2024

Senior Research Associate in Computational DNA/RNA Nanotechnology

Newcastle University

November 2020 - August 2023

Research Associate in Computational Nanobiology

Newcastle University

January 2016 - November 2020

Education

PhD (Centre for Life, Mind and Society (IAS Research Group))

University of the Basque Country

January 2010 - December 2015

PhD (ICREA-Complex Systems Lab)

Pompeu Fabra University

January 2010 - December 2015

MSc Evolutionary and Adaptive Systems (Department of Informatics)

University of Sussex

October 2007 - August 2009

BSc Artificial Intelligence and Computer Science (Department of Computer Science)

University of Sheffield

September 2000 - September 2003

Certifications

  • none

    None

    January 2025 - Present

Publications
PREPRINT
Ben Shirt-Ediss, Arián Ferrero-Fernández, Daniele De Martino, Leonardo Bich, Alvaro Moreno, Kepa Ruiz-Mirazo (2024). Modelling the prebiotic origins of regulation & agency in evolving protocell ecologies .
Ben Shirt-Ediss, Jordan Connolly, Juan Elezgaray, Emanuela Torelli, Silvia Adriana Navarro, Jaume Bacardit, Natalio Krasnogor (2023). Reverse Engineering DNA Origami Nanostructure Designs from Raw Scaffold and Staple Sequence Lists .
JOURNAL ARTICLE
Ben Shirt-Ediss, Jordan Connolly, Juan Elezgaray, Emanuela Torelli, Silvia Adriana Navarro, Jaume Bacardit, Natalio Krasnogor (2023). Reverse engineering DNA origami nanostructure designs from raw scaffold and staple sequence lists . Computational and Structural Biotechnology Journal.
A last-in first-out stack data structure implemented in DNA <head> <META HTTP-EQUIV="Refresh" CONTENT="0;URL=/servlet/useragent"> </head> . Nature Communications.
Harold Fellermann, Ben Shirt‐Ediss, Jerzy Kozyra, Matt Linsley, Dennis Lendrem, John Isaacs, Thomas Howard (2019). Design of experiments and the virtual PCR simulator: An online game for pharmaceutical scientists and biotechnologists . Pharmaceutical Statistics.
Ben Shirt-Ediss, Sara Murillo-S&#225;nchez, Kepa Ruiz-Mirazo(2017). Framing major prebiotic transitions as stages of protocell development: three challenges for origins-of-life research . Beilstein Journal of Organic Chemistry. 13. p. 1388--1395. Beilstein Institut
Ben Shirt-Ediss, Ricard Sol&#233;, Kepa Ruiz-Mirazo(2015). Emergent Chemical Behavior in Variable-Volume Protocells . Life. 5. (4). p. 181--211. {MDPI} {AG}
Ben Shirt-Ediss, Kepa Ruiz-Mirazo, Fabio Mavelli, Ricard V. Sol&#233;(2014). Modelling Lipid Competition Dynamics in Heterogeneous Protocell Populations . Scientific Reports. 4. (1). Springer Nature
OTHER
Ben Shirt-Ediss, Harold Fellermann, Jerzy W. Koryza, Matthew Linsley, Dennis W. Lendrem, Thomas P. Howard(2018). The PCR Simulator: an on-line application for teaching Design of Experiments and the polymerase chain reaction . Cold Spring Harbor Laboratory
Ben Shirt-Ediss(2011). Dynamical Systems Analysis of a Protocell Lipid Compartment . Advances in Artificial Life. Darwin Meets von Neumann. p. 230--239. Springer Berlin Heidelberg
CONFERENCE PAPER
Ben Shirt-Ediss, Jerzy Kozyra, Harold Fellermann, Annunziata Lopiccolo, Natalio Krasnogor(2017). Optimizing nucleic acid sequences for a molecular data recorder . Proceedings of the Genetic and Evolutionary Computation Conference on - GECCO '17. {ACM} Press
Ben Shirt-Ediss, ICREA-Complex Systems Lab, Institut de Biologia Evolutiva, CSIC-UPF, Barcelona, Spain; Logic and Philosophy of Science Department, University of The Basque Country, San Sebast&#237;an, Spain, Ricard Sol&#233;, et al.(2015). A New View of Protocell Metabolism . 07/20/2015-07/24/2015. The {MIT} Press
Ben Shirt-Ediss, Ricard Sol&#233;, Kepa Ruiz-Mirazo(2013). Steady state analysis of a vesicle bioreactor with mechanosensitive channels . Advances in Artificial Life, ECAL 2013. {MIT} Press