Connecting European Neuroscience

Marja-Leena Linne

CHET member (2014 - 2018)

Curriculum Vitae

Professional and academic career

2009 Adjunct Professor


2001 PhD, Department of Information Technology, Tampere Univ. of Technology, Finland


1993 Master, Department of Electrical Engineering, Tampere Univ. of Technology, Finland
As an electrical engineer with PhD in information technology, I have transformed myself to become an electrophysiologist and computational biologist/neuroscientist. I have been one of the pioneers in the field where nothing existed by combining experimental research with computational modelling and informatics tools. I have therefore helped to shape the research field from the very beginning. I am additionally an active member of international boards of OCNS and INCF promoting integration of wet-lab and in silico studies. Selection to these boards through a competitive election process has been made possible by large international network of contacts and scientific visits to world-leading labs doing both experimental work and computational studies.

2004 – 09 Academy Research Fellow (non-tenured Assoc. Prof., competitive), Academy of Finland, Finland

2002 – 03 Academy Postdoctoral Researcher, Computational Systems Biology Group, Tampere Univ. of Technology, Finland


1998 Univ. of Pavia, Italy (Prof. Egidio D’Angelo)

1997 Univ. of Antwerp, Belgium (Prof. Erik De Schutter)

1996 Visiting scholar, Doctoral Program on Computation & Neural Systems, Caltech, USA
Research funding (1 616 252 € in 2001-2016), including 2014 EU FET Flagship Human Brain Project (competitive call).

Honors and awards

Prizes and awards


2011 Award received from the Foundation of Tampere University of Technology, Finland, for Most Promising Research Group

2006 Centre of Excellence in Signal Processing awarded to Prof. Jaakko Astola, Dr. Linne as Co-PI of the Centre


1996 Award received from Finnish Brain Research Society, Finland


Fellowships and scholarships

2004 – 09 Scholarship received from Academy of Finland for Academy Research Fellow (Assoc. Prof.)


2002 – 04 Scholarship received from Academy of Finland for postdoctoral research


1998 – 01 Scholarship received from TISE Graduate School, Finland, for post-graduate studies


1996 Scholarship received to participate in the Computational Neuroscience Course at Univ. of Crete, Greece (30 were selected from 120 applicants)


1994 Scholarship received to participate in the Ion Channel Structure and Function Course, Cold Spring Harbor Laboratory, Long Island, NY, USA (10 were selected from 65 applicants).

General administrative and organisational experience

Organisational of scientific meetings
:

2012 Co-Organizer of workshop “Modeling what we can see”, Neuroinformatics 2012 Conference, Germany

2011 Co-Organizer of workshop “Towards Multimodal Modeling: Linking cortical network models to various types of neural measurements”, CNS*2011 Conference, Sweden


2010 – 13 Principle organizer of the yearly INCF National Node of Finland workshops, held in different universities in Finland


2004 – 11 Member of scientific committee, International TICSP Workshop on Comp. Systems Biology COMMISSIONS OF TRUST


2014 – 16 Member of the Board of Directors, Organization for Computational Neuroscience (OCNS)


2011 – 15 Member of Training Committee, Int. Neuroinformatics Coordination Facility (INCF)


2011 – 13 Member of Electrophysiology Data Sharing Task Force, INCF

2011 Evaluator of bioinformatics research in Finland, Academy of Finland, Finland


2008 – 15  Member, Coordination Committee, INCF National Node of Finland.

Expertise in national or international training of students

Organisation of summer schools:


2013, 2014 Principle organizer of 1st and 2nd Baltic-Nordic Summer School in Neuroinformatics, Vytautas Magnus University, Kaunas, Lithuania (2013) and Tampere Univ. of Technology, Tampere, Finland (2014)

2012-13 Organizer of INCF Short course on Neuroinformatics (Munich and Stockholm)

2003 Invited lecturer at the Summer School on ‘The electrical brain: From ion channels to clinical neurophysiology’, Univ. of Kuopio, Kuopio, Finland.

Teaching:


2001–14 Principle lecturer at the courses Introduction to Neuroinformatics, Introduction to Computational Systems Biology, Cellular Electrophysiology, Signal Processing Project

Supervision:

7 PhDs successfully supervised from signal processing, electrical engineering, mathematics, biochemistry, cell biology, and electrophysiology (as principal supervisor nominated by the faculty).


Two ongoing PhD supervisions:

Supervision of two postdocs and MSc (8) and BSc (2) theses.

Research interests

Computational neuroscience; neuroinformatics
Experimental neuroscience, electrophysiology, neuroimaging, and microscopy
Computational systems biology; computational biology
Signal processing, dynamic systems, informatics, and their applications in neuroscience
In addition to theoretical and computational neuroscience techniques, Dr. Linne has research experience and track record in the following wet-lab techniques which give her ability to work across traditional disciplinary boundaries in neuroscience: Cell culturing, Microcopy and cell and molecular biology techniques, and Electrophysiological techniques.
Dr. Linne's research interests include applying the above-mentioned techniques and methods to model the behavior of in vitro neurons and neuronal networks, and she is currently applying the methodology to model neuronal-glial interactions in cortical tissue.

Publications

  • M. -L. Linne and T. O. Jalonen. Astrocyte-Neuron Interactions: From Experimental Research Based Models to Translational Medicine. PMBTS - Computational Molecular Neuroscience: Novel Approaches to Understanding Diseases of the Nervous System, 2013 (illustration selected as the cover image of the book).
  • T. Mäki-Marttunen, J. Aćimović, K. Ruohonen, and M. -L. Linne. Structure-Dynamics Relationships in Bursting Neuronal Networks Revealed using a Prediction Framework. PLoS ONE 8(7) : e69373, 2013. doi:10.1371/ journal. pone. 0069373

  • K. Hituri and M. -L. Linne. Comparison of Models for IP3 Receptor Kinetics Using Stochastic Simulations. PLoS ONE, 8(4) : e59618, 2013. doi:10.1371/journal. pone. 0059618
  • T. Mäki-Marttunen, J. Aćimović, M. Nykter, J. Kesseli, K. Ruohonen, O. Yli-Harja, and M. -L. Linne. Information Diversity in Structure and Dynamics of Simulated Neuronal Networks. Frontiers in Computational Neuroscience 5: 26, 2011.
  • J. Aćimović, T. Mäki-Marttunen, R. Havela, H. Teppola, and M. -L. Linne. Modeling of neuronal growth in vitro: Comparison of simulation tools NETMORPH and CX3D. EURASIP Journal on Bioinformatics and Systems Biology, Volume 2011, Article ID 616382, 2011.

  • E. Toivari, T. Manninen, A. K. Nahata, T. O. Jalonen, and M. -L. Linne. Effects of Transmitters and Amyloid-beta Peptide on Calcium Signals in Rat Cortical Astrocytes: Fura-2AM Measurements and Stochastic Model Simulations. PLoS ONE 6(3) : e17914, 2011.

  • J. Intosalmi, T. Manninen, K. Ruohonen, and M. -L. Linne. Computational study of noise in a large signal transduction network. BMC Bioinformatics 12: 252, 2011.

  • T. Manninen, K. Hituri, J. Hellgren-Kotaleski, K. T. Blackwell, and M. -L. Linne. Postsynaptic signal transduction models for long-term potentiation and depression. Frontiers in Computational Neuroscience 4:152, 2010.
  • A. Saarinen*, M. -L. Linne*, and O. Yli-Harja. Stochastic differential equation model for cerebellar granule cell excitability. PLoS Computational Biology 4(2) : e1000004, 2008. * Equal contribution.

  • T. Manninen, M. -L. Linne, and K. Ruohonen. Developing Itô stochastic differential equation models for neuronal signal transduction pathways. Computational Biology and Chemistry 30: 280–291, 2006.
The applicant has multi- and interdisciplinary background and track-record in both in vitro and in silico. From 1991 to 1998, she used extensive periods of time learning electrophysiology (patch clamp) and imaging (light microscopy) techniques, mostly abroad. From 2009 to 2014, she familiarized herself with multi-electrode array recording technique to be able to better map neuronal structure with function.
Full publication list is available at: http://www. cs. tut. fi/~linne/Publications_Linne. pdf.

 

Marja-Leena Linne

Research Team Leader (Computational Neuroscience Group,
http://www. cs. tut. fi/sgn/cns/)
Department of Signal Processing, Tampere University of Technology, Korkeakoulunkatu 1, FI-33720 Tampere, Finland
(also affiliated with Institute of Biosciences and Medical Technology, Univ. of Tampere, Finland)

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