LOgo SBI Uni Rostock

SBI – Department of Systems Biology and Bioinformatics
Faculty of Computer Science and Electrical Engineering
University of Rostock
Ulmenstrasse 69 | 18057 Rostock
Germany
  +49 381 498-7571
  olaf.wolkenhauer@uni-rostock.de

Vasundra Touré

To visualize Systems Biology networks and provide a consistent tool for creating them, I support the SBGN community by improving the SBGN standard and maintaining software support.

PhD Students

Research interest

My research takes interest on the Systems Biology Graphical Notation (SBGN), a standard for visualising biological pathway, developed by a community of scientists. I support the SBGN community by working on the libSBGN development and on the improvement of SBGN-ED functionalities to support SBGN. Since January 2016, I am also responsible for the SBGN symbol of the month (accessible here) which provides every month a short description and examples of a SBGN symbol taken from the specifications.

Academic background

March 2017 - present
Norwegian University of Science and Technology
Trondheim/Norway September 2015 - February 2017
Department of Systems Biology and Bioinformatics at the University of Rostock
Rostock/Germany

February 2015 - August 2015
Project: "Standards in Systems Biology: new tools to improve knowledge representation"
Internship at the European Institute of Systems Biology and Medicine
Lyon/France

June 2014 - August 2014
Project: "Inference of ecological models from genetic and environmental data in R"
Internship at the Laboratoire Evolution, Génomes, Spéciation (LEGS, IRD, CNRS)
Gif-sur-Yvette/France

2013 - 2015
Master student in Bionformatics and Biostatistics at the University Paris-Sud
Orsay/France

2011 - 2013
Bachelor student in Living Sciences at the University Pierre et Marie Curie
Paris/France

2009-2011
Medical studies at the University Pierre et Marie Curie
Paris/France

Selected publications

Harmonizing semantic annotations for computational models in biology

Neal M, Dräger A, Wolkenhauer O et al.

Brief Bioinform. (Epub ahead of print)

DOI: 10.1093/bib/bby087

Pubmed: https://www.ncbi.nlm.nih.gov/pubmed/30462164?dopt=Abstract

URL: https://academic.oup.com/bib/advance-article/doi/10.1093/bib/bby087/5164345

Evolution of computational models in BioModels Database and the Physiome Model Repository

Scharm M, Gebhardt T, Touré V, Bagnacani A, Salehzadeh-Yazdi A, Wolkenhauer O, Waltemath D

BMC Systems Biology 12:53 (2018)

DOI: https://doi.org/10.1186/s12918-018-0553-2

URL: https://bmcsystbiol.biomedcentral.com/articles/10.1186/s12918-018-0553-2

Quick tips for creating effective and impactful biological pathways using the Systems Biology Graphical Notation

Touré V, Le Novère N, Waltemath D, Wolkenhauer O

Plos Computational Biology

DOI: https://doi.org/10.1371/journal.pcbi.1005740

STON: exploring biological pathways using the SBGN standard and graph databases

Touré V, Mazein A, Waltemath D, Balaur I, Saqi M, Henkel R, Pellet J, Auffray C

Open Access article in BMC Bioinformatics 2016, 17:494

DOI: https://dx.doi.org/10.1186/s12859-016-1394-x

Toward community standards and software for whole-cell modeling

Waltemath D, Karr JT, Bergmann FT, Chelliah V ... Scharm M et al.

Open Access article in IEEE Transactions on Biomedical Engineering 63:10, pp. 2007-14 (2016)

DOI: http://dx.doi.org/10.1109/TBME.2016.2560762

URL: http://ieeexplore.ieee.org/document/7489010/

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