SPECIMEN: A workflow for automated strain-specific metabolic modeling

Carolin Brune develops a modeling toolbox and applies it to Klebsiella pneumoniae as her master…

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Reconstruction, validation, and phenotypic predictions strain-specific metabolic model of Staphylococcus capitis

Anna Lefarova creates a metabolic model for S. capitis in her bachelor thesis.

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Strain-specific metabolic models of Corynebacterium striatum

Famke Bäuerle reconstructs metabolic models and validates them in vitro in the context of two master…

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Reconstruction, Comparison and Growth Simulation of Strain-specific Metabolic Computer Models of Staphylococcus haemolyticus

Gwendolyn O. Gusak is developing a collection of high-quality models for S. haemolyticus in her…

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Successful disputation of our group member

Thorsten Tiede successfully defended his dissertation „Providing Biological Networks for Molecular…

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Targeted computer modelling to accelerate antiviral drug development

Preparing for the next pandemic: Researchers from Tübingen use computer models to detect targets for…

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3rd place in the Youth Research Competition

Our Nagold high school students Henrik Schick and Simon Straub could convince with their virus model

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Reconstruction of a genome-scale metabolic network of Staphylococcus lugdunensis

Selin Sahin creates the first genome-scale metabolic model for Staphylococcus lugdunensis N920143 as…

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First genome-scale reconstruction of Klebsiella pneumoniae HS11286

Meike Lips creates in her bachelor thesis the first model of the strain HS11286 of K. pneumoniae.

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Genome-scale metabolic model of Acinetobacter baumannii

Yufan Xia reconstructed and validated a genome-scale model of strain ATCC 17978

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First metabolic model of Proteus vulgaris FDAARGOS_1507 (DSM 46228)

Manuel Harke reconstructed the first genome-scale metabolic model of Proteus vulgaris during his…

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First disputation of our group successfully completed

Alina Renz successfully defends her doctoral thesis „From Nose to Lung: Using Systems Biology to…

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New GEM of Finegoldia magna ATCC 29328

A new genome-scale metabolic model of Finegoldia magna was constructed by Josua Carl as a bachelor's…

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New genome-scale reconstruction of Corynebacterium simulans PES1

In his bachelor thesis, Jan-Philipp Leusch reconstructed a new model.

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ILW Award 2020/21 goes to Nantia Leonidou for her master thesis

Nantia Leonidou was honored for her master’s thesis on tissue-specific reconstruction of…

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Successful Ph.D. defense in computational neuroscience

Martina Feierabend successfully defendet her theses “Plasticity of the auditory modality”.

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Co-organization of the 6th annual SysMod meeting of the ISMB/ECCB.

Tübingen‘s systems biology team contributes to shaping the international systems modeling gathering.

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Using computer models to identify weak spots in a virus

Andreas Dräger supports science communication - here with a Podcast in the Apotheken Umschau

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Automating the refinement of C. striatum

Famke Bäuerle implemented a template for reconstruction and used it for C. striatum as her research…

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Protein sequence clustering with DIAMOND

In her bachelor thesis, Jasmin Katz extended and optimized the clustering algorithm of DIAMOND.

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High school students model multidrug-resistant bacteria for the Youth Research Competition

Aleyna Murat and Burcu Karakum achieve the 3rd place with systems biology models.

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Tissue-specific reconstruction of constraint-based metabolic models based on ReconX

In her master thesis, Nantia Leonidou implemented a tool for tissue-specific model reconstruction…

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Bioinformatics-based potential therapeutic approach against COVID-19

Widespread media coverage of SARS-CoV-2 research results presented by Jun.-Prof. Andreas and Alina…

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Genome-scale model of Corynebacterium glutamicum

In her master thesis, Martina Feierabend created an extended model of one of the most relevant…

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Automating the Assignment of Systems Biology Onotology Terms

In her bachelor's thesis, Elisabeth Fritze suggests an automatic assignment of SBO terms for…

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Visual exploratory web application for flux sampling results

In his master thesis, Constantin Holzapfel created a visual exploratory web application to visualize…

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Alina Renz awarded for her master thesis about virulence factors of P. aeruginosa

The German Society for Medical Informatics, Biometry & Epidemiology awards Alina Renz

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Diagramming Against COVID-19

We fight against SARS-CoV-2 in great teams and with support from yWorks.

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Genome-scale Model of Staphylococcus epidermidis

Anastasiia Grekova developed the first model of the facultative pathogen in her bachelor thesis.

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First draft model for Corynebacterium striatum KC-Na-01

As a result of her research project, Tanja Urz constructed a new computer model.

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Visualization of clinical multiomics data—The web-based application VMOD is extended

In her bachelor thesis, Ebru Cobanoglu improves the web-based visualization software VMOD

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Tabular editor for systems biology models

Marietta Hamberger developed a table editor for the SBTab format as an InSilico plugin.

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Automatic linking from genome to the reactome

Manuel Dienert's approach for the automatic inference of gene-protein reaction rules

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Google funds 2 students' projects

Two international students contribute to software projects of the systems biology research group.

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First model draft of Dolosigranulum pigrum 83VPs KB5

During her research project, Lina Widerspick has constructed a new model.

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Web-based visualization of clinical multi-omic data in networks

A new browser software puts clinical data into the context of biological networks.

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Antibiotic resistance in Pseudomonas aeruginosa

In his bachelor thesis Eike Pertuch investigated relevant resistance mechanisms.

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First model draft of Moraxella catarrhalis BBH18

As a result of her research project, Pia Rautenstrauch introduces a new model.

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Updated model of the pathogen H. influenzae

Niklas Henle expanded a genome-scale model of Haemophilus influenzae toward the human nose…

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Google announces results of the Summers of Code 2019

All three systems biology projects completed the Summer of Code.

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Dynamically animated metabolic networks

SBMLsimulator 2.0 enables users to map time-series data sets to interactive networks.

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Interactive visual simulator for systems biology models

Mykola Zakharchuk developed an interactive InSilico plugin in his bachelor thesis.

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Google funds three students' projects

Three international students contribute to software projects of the systems biology research group…

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4th Annual Meeting for Biological Systems Modeling

Abstracts can be submitted until April 11to SysMod at ISMB/ECCB.

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First version of an InSilico app for SBML files

Robert Deibel created a table-based editor plugin for InSilco.

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Google Summer of Code 2019

International students may now apply for exciting projects.

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Gene deletion increases bacterial virulence

Genes of the central carbon metabolism influence the virulence of the hospital germ P. aeruginosa.

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The first draft model of the syphilis pathogen

In her master thesis, Silvia Morini reconstructed the first genome-scale model for Treponema…

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New cluster of excellence for fighting infectious diseases

The University of Tübingen was able to acquire 3 clusters of excellence—one with systems biology…

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Visualization of Biochemical Processes - Temperature Dependence in Red Blood Cells

Animation explains temperature dependence of metabolism in human erythrocytes.

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Visualization of biochemical processes—storage of blood platelets

An animation explains biochemical processes in blood through a novel visualization.

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New plugin-based software framework

Congratulations to Roman Schulte for successfully defending his bachelor thesis.

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Google Summer of Code 2018 (GSoC)

Shalin Shah of Duke University successfully worked on the SBSCL project this summer.

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Newly appointed: Junior Professor Dr. Andreas Dräger

Junior Professor of Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens…

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Modeling of metabolism and gene expression in SBML

First draft for a uniform standard for storing ME models in SBML developed.

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Validation and simulation of qualitative models in Java™

A package for logical modeling has been added to the Java library JSBML.

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Dynamic visualization of time-dependent data in the context of systems biology networks

In two bachelor theses, methods were developed for animating biological networks using time-lapse…

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Modeling of the essential genes of microbial life

EU-Projekt leistet Beitrag, um lebensnotwendigen genetischen Kern von Zellen zu identifizieren.

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YouTube Channel to Systems Biology

A new channel with topics related to systems biology has been set up on YouTube.

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Tübingen Bioinformatics supports international study into microbe survival

Bioengineers identify key genes and functions for sustaining microbial life in University of…

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Bioengineers identify essential genes of microbial life.

New study defines minimal genetic composition and functions of bacterial cells.

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