Alumni
Former employees and students of the workgroup
Postdoctoral Researchers
Dr. Reihaneh Mostolizadeh
Mathematician and Lecturer in Systems Biology
Dr. Martina Feierabend
M.Sc. in Bioinformatics
Dr. Bashir Sajo Mienda
Lecturer in Systems Biology
Biotechnologist
Participation: September 2020 to February 2021
Contact
Research Assistants
Dr. rer. nat. Alina Renz
M.Sc. in Bioinformatics
Mahdi Sadeghi
MSc in Computer Science
Sand 14 ⋅ Office C107
72076 Tübingen
Germany
+49-7071-29-70452
+49-7071-29-5152
mahdi.sadeghi@uni-tuebingen.de
Participation
December 2019 to May 2020
Project
Thorsten Tiede
MSc in Bioinformatics
Sand 14 ⋅ Office C107
72076 Tübingen
Germany
+49-7071-29-70452
+49-7071-29-5152
thorsten.tiede@gmail.com
Participation
December 2019 to April 2020
Project
Further information
Thomas M. Hamm
Biologist (t.o.)
Participation
November 2016 to November 2019
Further information
Visiting Doctoral Candidates
Fatma Ece Altınışık Kaya
M.Sc. in Bioengineering
Participation: November 2022 to December 2023
Contact
fatma-ece.altinisik-kaya@student.uni-tuebingen.de
Further information
Student assistants
Anna Lefarova
Subject: Bioinformatics
Thesis
Analyzing the metabolic phenotypes of Staphylococcus capitis using constraint-based modeling
Participation: January to September 2023
Graduation: May 23rd, 2023
Contact
Catalina S. Schlotterer
B.Sc. in Bioinformatics
Dario Eltzner
B.Sc. in Bioinformatics
Participation: May 2022 to August 2022
More information
Contact
Eike Pertuch
M.Sc. in Bioinformatics
Participation:
April 2020 to July 2022
Thesis
Modelling and Visualization of specific resistance mechanisms in Pseudomonas aeruginosa
Graduation: September 2019
Finn Mier
B.Sc. in Bioinformatics
Participation: August 2021 to February 2022
Working on genome-scale model of Corynebacterium tuberculostearicum
Mentor:
Dr. Reihaneh Mostolizadeh
Manuel Glöckler
B.Sc. in Bioinformatics
Participation: September 2020 to February 2022
Working on community model of D. pigrum and S. aureus
Mentor:
Dr. Reihaneh Mostolizadeh
Theresa Störiko
B.Sc. in Bioinformatics
Participation: September 2021 to January 2022
Working on genome-scale model of Corynebacterium accolens
Mentor:
Dr. Reihaneh Mostolizadeh
Leon van Ess
B.Sc. in Bioinformatics
Participation: September 2021 to January 2022
Working on genome-scale model of Corynebacterium accolens
Mentor:
Dr. Reihaneh Mostolizadeh
Oskar Wacker
Master in Bioinformatics
Participation: Since September 2020 to April 2021
Working on community model of H. influenzae and S. aureus
Mentor:
Dr. Reihaneh Mostolizadeh
Constantin Holzapfel
Major: Bioinformatics
Thesis
Visual analysis of flux sampling simulations based on extracellular metabolomic measurements
Defense:
September 15th 2020 at 11:30 a.m. via Zoom
Participation:
January and February 2021
Najia Ahmadi
Master in Medical informatics
Participation: September 2020 to November 2020
Working on community model of S. epidermidis and S. aureus, M. catarrhalis and S. aureus
Mentor:
Dr. Reihaneh Mostolizadeh
Anastasiia Grekova
Major: Bioinformatics
Thesis
Reconstruction and Analysis of Staphylococcus epidermidis
Defense:
June 16th 2020
Participation
March 2020 to September 2020
Further information
Thomas J. Zajac
BSc in Bioinformatics
Participation:
- May 2016 to February 2018
- Since November 2019
Further information
Onur Özel
David E. Vetter
Maria E. Heitmeier
Anton J. Rabe
Subject: Cognitive science
Participation:
November 2018 to April 2019
Further information
Christoph Blessing
Bachelor in bioinformatics
Assistance:
November 2017 to
February 2018
Thesis
Development of an interactive graphical editor for systems biology models
Graduation: September 2017
Further information
Veronika Kohler
Master students
Tobias Fehrenbach
B.Sc. in Biologie
Subject: Bioinformatics
Thesis
Reconstruction of a metabolic model of Streptococcus sanguinis
Participation since: September 2023
Expected graduation: April 2024
Contact
Famke Bäuerle
B.Sc. in Bioinformatics
Subject: Bioinformatics
famke.baeuerle@student.uni-tuebingen.de
Participation since: November 2020
Graduation: May 2023
Thesis
Reconstruction of Corynebacterium striatum KC-Na-01
Further information
Manuel O. Harke
Master in Bioinformatics
Participation: September 2020 to November 2020 and October 2021 to December 2021
Working on Dynamic model of the microbial community
Mentor:
Theses
Visual analysis of clinical multi-omics data in biological networks
Co-mentor of the thesis: Jun.-Prof. Dr. Michael Krone
Defense: November 19th 2019 at 10:15 a.m. in C109
Reconstruction of a metabolic model of Proteus vulgaris
Further information
Austėja Sungailaitė
B.Sc. in Molecular Biology
Thesis
Reconstruktion of a metabolic model of Staphylococcus lugdunensis
Mentor
Graduation: December 2021
Further information
Tanja Urz
Subject: Molecular Medicine
Research Project
Reconstruction of Corynebacterium striatum
Defense:
June 2nd 2020
Marietta Hamberger
BSc in Computational Linguistics
Research Project
Graphical editor for systems biology models
Defense:
May 5th 2020
Further information
Lina Widerspick
Subject: Molecular Medicine
Research Project
Reconstruction of Dolosigranulum pigrum
Defense:
March 16th 2020
Pia Rautenstrauch
Subject: Bioinformatics
Research Project
Reconstruction of Moraxella catarrhalis BBH18
Defense:
September 10th 2019 in C118a
Silvia Morini
Field of study: biology
Thesis
Genome-scale metabolic network reconstruction of the pathogen Treponema pallidum ssp. pallidum
Graduation: September 2018
Further information
Josua Carl
Subject: Bioinformatics
Thesis
Investigation of Finegoldia magna ATCC 29328 in the nasal environment
Participation since: September 2021
Expected graduation: Feburary 2022
Mentor
Contact
josua.carl@student.uni-tuebingen.de
Further information
Marc Alexander Voigt
Field of study: bioinformatics
Thesis
Representation of ME-models in SBML
Graduation: June 2018
Further information
Bachelor students
Sophia Krappen
Thesis
Unraveling metabolic insights of Staphylococcus warneri using systems biology
Participation: November 2023 - March 2024
Mentor
Contact
sophia.krappen@student.uni-tuebingen.de
Further information
Selin Sahin
Subject: Bioinformatics
Thesis
Reconstruction of a genome-scale metabolic network of Staphylococcus lugdunensis N920143
Participation: April to September 2022
Mentors
Nantia Leonidou, Jun.-Prof. Dr. Andreas Dräger
Contact
Meike Lips
Subject: Bioinformatics
Thesis
A genome-scale metabolic model of Klebsiella pneumoniae HS11286
Participation: May to August 2022
Graduation: August 22nd 2022
Mentors
Nantia Leonidou, Jun.-Prof. Dr. Andreas Dräger
Contact
Yufan Xia
Subject: Bioinformatics
Thesis
Genome-scale metabolic modelling of Acinetobacter baumannii ATCC 17978
Participation since: March 2022
Graduation: August 22nd 2022
Mentors
Nantia Leonidou, Jun.-Prof. Dr. Andreas Dräger
Contact
yufan.xia@student.uni-tuebingen.de
Further information
Jan-Philipp Leusch
Subject: Bioinformatics
jan-philipp.leusch@student.uni-tuebingen.de
Participation since: May 2021
Thesis
The first genome-scale reconstruction of Corynebacterium simulans PES1
Expected graduation: September 2021
Elisabeth Fritze
Major: Bioinformatics
Thesis
Automating the Assignment of SBO-Terms
Expected completion:
September 2020
Further information
Ebru Cobanoglu
Major: Medical informatics
Thesis
Optimized Layouting of Biological Networks for the Comparative Visual Analysis
Defense:
June 2nd 2020
Contact
Manuel Dienert
Major: Bioinformatics
Thesis
Derivation of gene-protein reaction rules
Defense:
May 5th 2020
Further information
Niklas Henle
Subject: Computer Science
Thesis
Expanded genome-scale model of Haemophilus influenzae
Graduation: September 2019
Further information
Mykola Zakharchuk
Subject: Computer Science
Thesis
Development of a plugin for the Insilico framework for the visual analysis of simulations of biological systems
Graduation: June 2019
Research Project
What makes a review helpful or funny?
Mentors:
Markus Viggiato, Prof. Dr. Cor-Paul Bezemer, Jun.-Prof. Dr. Andreas Dräger
Graduation: November 2019
Further information
Robert Deibel
Subject: Bioinformatics
Thesis
Development of an editor for large-scale biochemical models
Graduation: March 2019
Further information
Lisa Falk
Field of study: bioinformatics
Thesis
Valiation and Simulation of Qualitative Models
Graduation: February 2018
Further information
Lea F. Buchweitz
Field of study: cognitive science
Thesis
Dynamic visualization of metabolic networks
Graduation: September 2017
Further information
External Students
Google Summer of Code and the NRNB Academy repeatedly fund several of the research group's software products. These programs allow international students to join the team and actively participate in the development of open source software.
Google Summer of Code 2020
Hemil Panchiwala
Subject: Computer Science and Engineering (B. Tech.)
Affiliation: Indian Institute of Technology, Roorkee, India
Project
Simulation of systems biology models in Java: support for new features
Participation: May to September 2020
Mentors
Jun.-Prof. Dr. Andreas Dräger, Dr. Matthias König, Mykola Zakharchuk, and Shalin Shah
Further information
Projekt blog
GitHub profile
LinkedIn profile
Twitter channel
Medium link
Hemant Yadav
Major: Computer Science and Technology (B. Tech)
Affiliation: Indian Institute of Technology, Roorkee, India
Project
Implementation of SBML-JSON converter and SBML-JSON scheme
Contact: hemant@cs.iitr.ac.in
Participation: May to September 2020
Mentors
Jun.-Prof. Dr. Andreas Dräger, Dr. Matthias König, Lucian P. Smith, and Sarah M. Keating
Further Information
Project blog
GitHub profile
LinkedIn profile
Twitter channel
Medium link
Google Summer of Code 2019
Nikhil Ghodke
Subject: Computer Engineering (B.Sc.)
Affiliation: Vishwakarma Institute of Technology, Pune
Project
Erstellsystem für das Plugin-Framework “InSilico”
Quellcode auf GitHub
Participation: April to September 2019
Mentors
Roman Schulte and Jun.-Prof. Andreas Dräger
Further information
Kaustubh Trivedi
Subject: Computer Science and Engineering (B. Tech.)
Affiliation: Indian Institute of Technology, Roorkee
Project
Extending ModelPolisher to a universal model annotation tool
Source code on GitHub
Participation: April to September 2019
Mentors
Jun.-Prof. Andreas Dräger,
Thomas J. Zajac, and Dr. Matthias König
Further information
Bhavye Jain
Subject: Computer Science and Engineering (B. Tech.)
Affiliation: Indian Institute of Technology, Roorkee
Project
Validierung räumlicher Modelle der Systembiologie in Java™
Quellcode auf GitHub
Participation: April to September 2019
Mentors
Nicolas Rodriguez, Thomas M. Hamm, and Lucian P. Smith, Ph.D.
Further information
Google Summer of Code 2018
Shalin Shah
Target degree: Ph.D.
Affiliation: Duke University, Department for Electrical and Computer Engineering, NC, USA
Project
Simulating systems biology models in Java™
Participation: April to August 2018
Mentors
Jun.-Prof. Dr. Andreas Dräger and Dr. Matthias König
Further information
Google Summer of Code 2017
Takhiro G. Yamada
Current position: Research associate
Affiliation: Keio University, Institute for Biosciences and Informatics
Project
Participation: April to August 2017
Mentors
Jun.-Prof. Dr. Andreas Dräger, Kaito Ii, and Dr. Matthias König
Further Information
Google Summer of Code 2016
Roman Schulte
Field of study: computer science
Thesis
InSilico - Concept of a Modular Research Environment
Graduation: August 2018
Project within the Google Summer of Code 2016
Mentors:
Jun.-Prof. Dr. Andreas Dräger, Dr. Sarah M. Keating, Dr. Michael Hucka, and Nicolas Rodriguez
Participation: May to August 2016
Further information
Tramy Nguyen
Position: Ph.D. student
Affiliation: University of Utah at Salt Lake City, UT, USA
Project
Interconversion between the systems biology modeling formats SBML and BioPAX
Participation: May to August 2016
Mentors
Dr. Michael Hucka, Jun.-Prof. Dr. Andreas Dräger, Prof. Dr. Chris J. Myers, Prof. Dr. Akira Funahashi, and Nicolas Rodriguez
Further Information
Hovakim Grabski
Position: Ph.D. student
Affiliation: Russian-Armenian University at Yeveran, Armenia
Project
Interconversion between the systems biology modeling formats SBML and BioPAX
Participation: May to August 2016
Mentors
Dr. Frank T. Bergmann, Dr. Sarah M. Keating, Jun.-Prof. Dr. Andreas Dräger, and Nicolas Rodriguez
Further Information
Kaito Ii
Position: Ph.D. student
Affiliation: Keio University, Institute for Biosciences and Informatics, Japan
Project
Interconvertible Layout software for CellDesigner
Participation: May to August 2016
Mentors
Prof. Dr. Akira Funahashi, Jun.-Prof. Dr. Andreas Dräger, Nicolas Rodriguez, and Dr. Michael Hucka
Further Information
Devesh Khandelwal
Subject: Information technology and mathematics
Affiliation: University of Delhi, Delhi, India
Project
Participation: May to August 2016
Mentors
Zachary A. King and Jun.-Prof. Dr. Andreas Dräger