Researchers & Contacts

RESEARCHERS

PhD researcher
É. Fernandes da Cunha MSc MRes (Éverton)
PhD Candidate

I've been a Ph.D. researcher at the University of Twente since October 2023, where I focus on using hypergraphs to model chemical reactions. I’m originally from Brazil and I bring a background in complex science (chaos and complex networks), machine learning, and control theory to my research. My interests extend beyond my academic pursuits, and I enjoy learning new things and incorporating them into my life and work. I believe that this background provides me with a unique perspective to explore real complex systems, such as chemical reactions, neuroscience, social science, metascience, and many other systems with amazing emergent behaviors.

PhD researcher
ir. Y.J. Kraakman (Yanna)
PhD Candidate

Hi! My name is Yanna, and I am an applied mathematician. Since September 2022, I am employed as a PhD candidate at the University of Twente, on the topic of Chemical Reaction Networks. My expertise lies in network science; I am intrigued by the beauty of networks and their effectiveness in uncovering structures. Within this project, I will therefore focus on establishing a connection between chemical reactions and mathematical networks and on discovering interesting properties of these networks. I am excited to contribute to this pioneering research.

Students

Supporting staff

I. Can - Katalanc (Izabel)
Secretary
M.A.J. de Bruine (Marcel)
Technical support

ALUMNI

Year

Education

Name

Current position

2025

PhD

Hazal Koyuncu

Kemipex FZCO

2025

PhD

Dmitrii Kriukov

Postdoctoral Researcher, at Radboud University Nijmegen

2024

MSc

Pepijn de Vries

T.B.D.

2024

MSc

Lieke Pieters

Chemistry Teacher at Bonhoeffer College (Enschede)

2024

MSc

Thomas van Poppel

Software Engineer, at Valcon (Utrecht)

2024

PD

Taghi Moazzendi

post doctoral fellow, at Eindhoven University of Technology

2024

BSc

Ivanna Vasylkiv

MSc student, at University of Amsterdam

2023

MSc

Salma Ramon Carrasco

PhD candidate, at University of Amsterdam

2022

BSc/HBO

Justin Morsink

unknown

2021

PD

Dr. Jacopo Movili

post doctoral fellow, at Harvard University



July 4, 2025

Hazal Koyuncu defended her PhD thesis "Design of Local Chemical Feedback Systems". Prof. G. Berkhoffzaal, University of Twente, Enschede. 

April 1, 2025

Dmitrii Kriukov defended his PhD thesis "Design of intelligent Autocatalytic Reaction Networks". Prof. G. Berkhoffzaal, University of Twente, Enschede


November 4, 2024

Pepijn de Vries defended his Msc thesis entitled "Controlling the Bistability of a Trypsin-Based Enzymatic Reaction Network". Pepijn successfully completed a project in which he determined how exactly La3+ can dictate the autocatalytic prodcution of trypsin from trypsinogen, impacting the chemical feedback directlyThis work is a continuation of our recent published with Dmitrii Kriukov, who supported this project as daily supervisor. Pepijn graduated as a Master in Chemical Science & Engineering. 

August 30, 2024

Lieke Pieters defended her Msc thesis entitled "Conceptueel modelleren: De brug naar het systematisch benaderen van scheikundige vraagstukken in het voortgezet onderwijs". Lieke successfully completed an innovative project in which she developed a teaching module that integrates systems thinking into secondary school chemistry education. With this research, Lieke has taken an important step towards preparing the “researchers of the future” to design innovations for an increasingly complex world.

This project has shown that Lieke has all the competencies required for an excellent researcher and teacher. Many congratulations to Lieke for this exceptional work--which was awarded with a 10/10 by the committee--and thanks to Talitha Visser for co-supervision. Lieke graduated cum laude as a Master in Educatie & Communicatie in de Bėtawetenschappen, and will pursue her career as a chemistry teacher.

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July 26, 2024

Thomas van Poppel defended his Msc thesis entitled "Graph-based projections reveal common structures underlying chemical reaction networks". Thomas successfully completed an innovative project in which he developed a computational technique for chemical reaction networks, enabling insights into their structure

Thomas graduated as a Master in Chemical Science & Engineering. Thomas demonstrated a unique ability in developing new research at the forefront of chemistry and mathematics. Many congratulations to him for this exceptional work, and thanks to Éverton F. da Cunha and Clara Stegehuis for their supervision. We wish him all the best at Valcon, where he will pursue his career as software engineer.

July 18, 2024

Ivanna Vasylkiv defended his Bsc thesis entitled "Controlling thiol-tetrazene interactions in flow". Ivanna successfully completed a project in which she developed a microfluidic approach to determine how thiol-tetrazine exchange reactions could influence larger biochemical processes. She demonstrated to be an excellent team member and obtained skills in peptide synthesis and flow chemistry. 

Many congratulations to Ivanna for this exceptional work, and thanks to Hazal Koyuncu and Nataliya Debera for their help in supervision. Ivanna graduated as a Bachelor in Chemical Science & Engineering. We wish Ivanna all the best at UvA, where she will aim to obtain her MSc degree in biochemistry.



September 22, 2023

Congrats to Salma Ramon Carrasco graduated for obtaining her Msc degree (the MSc of the CRN lab!). A big thank you to Salma for her thesis "Rational design of a programmable hydrogel: from molecular to mechanical properties" which will spark a new research direction for our lab. We enjoyed working with Dr. J. Paez, co-supervisor, on this work.






COLLABORATORS


In the Molecular NanoFabrication research group (MNF), we collaborate with prof. J. Huskens and Dr. S. Lindhoud, and as part of the department of Molecules and Materials (MOLMAT), we aim to foster an environment to create enthusiasm for synthesis of molecular systems and applications of molecular materials in real-world technology.

In the center for Brain-Inspired Nano Systems (BRAINS), we collaborate with prof. W. v. d. Wiel and prof. H. Hilgekamp and many others from various disciplines (ranging from computer science, artificial intelligence to neuroscience) to develop novel physical hardware for information processing and artificial intelligience. BRAINS is part of the MESA+ institute, which hosts one of Europe’s largest nano facilities. 

Karlsruhe Nano Micro Facility (KNMFi) offers expertises that go beyond our own MESA+ Nanolab. Togehter collaborators Dr. M. Hirtz, Karlsruhe Institute of Technology, and Dr. S. Sekula-Neuner, senior scientist, n.able, we aim establish a strong connection between UT and KIT through demonstrating the applicability of CRNs in biological and material sciences.