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Photo of Carl Troein
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Carl Troein

Researcher

Denna sida på svenska
Photo of Carl Troein

My research interests span a wide range of topics around the intersection of biology and computational science. Broadly speaking, my research has been a mixture of coarse-grained and detailed modeling, often involving gene regulatory networks, and development of algorithms and open source software.

Contact details
Organisation
  • Centre for Environmental and Climate Science (CEC)
  • Room number: 50
  • Service point: 50
Webpage
Other affiliations
  • Researcher
    Computational Biology and Biological Physics - Undergoing reorganization
  • Researcher
    MEMEG

Since the beginning of my research career, I have worked with Boolean gene regulatory network models, the HP model of protein folding, stem cell regulation, circadian clocks in plants, plant-pathogen interactions, evolutionary algorithms, degradation of soil organic matter by fungi and methods for processing spectroscopic imaging data. Most of this research has been cross-disciplinary in nature, and I have participated in two interdisciplinary themes: bio-inspired energy conversion and synthetic biology. 

The building blocks of my research are things like ODE systems, graph algorithms, parameter optimization and more recently also iterative data processing algorithms and machine learning. My current work is focused on software and algorithms for vibrational spectroscopy imaging in the OCTAVVS project, and as well as biological and medical applications.

As an applications expert at CIPA, the Correlative Image Processing and Analysis software infrastructure at LU, I provide researchers with services within my field of expertise, in particular regarding 2D spectroscopic data processing. Feel free to contact me about developing, combining and visualizing steps such as data loading, pre-processing, dimensionality reduction and AI classification.

Supervised students and postdocs

• Syahril Siregar, Postdoc 2018–2020
• Adriaan Merlevede, PhD student 2015–2020
• Tomas Martin-Bertelsen, Postdoc 2014–2019
• Karl Fogelmark, PhD student 2011–2016
• Ruijue ‘Jerry’ Huang, MSc project 2023
• Sofia Andersson, MSc project 2022
• Dejan Stančević, BSc project 2021–2022
• Eric Kull, BSc project 2018–2019
• Stephan Pissot, MSc project 2019–2020
• Sebastian Hutteri, BSc project 2018–2019
• Henrik Åhl, Summer/BSc projects 2015–2016

Teaching

• FYTN05/EXTQ01 Theoretical biophysics in Canvas
• FYTN12 Systems biology in Canvas

Software

• OCTAVVS: preprocessing and analysis of vibrational spectroscopy data.
• BASE – BioArray Software Environment: Microarray data and analysis platform.

Links

Publications on Google Scholar

Publications

Displaying of publications. Sorted by year, then title.

Page manager: camilla [dot] king [at] cec [dot] lu [dot] se | 8 Mar 2023