@DraegerLab

Halle’s bioinformatics and data analyticsresearch group @UniHalle | @DZIF_

 Halle (Saale), Germany
Joined July 2018
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Anyone who has curated GEMs knows how tedious mass and charge balancing can be — MCC was built to drastically reduce the manual effort in this step. Thanks to @reihaneh_mo for leading this project!
Prof. Dr. Andreas Dräger@dr_draeJan 17
Our new paper in Microbiology Spectrum 🎉 We present the Python tool MCC, which automates the cumbersome mass and charge curation of genome-scale metabolic models (GEMs), and demonstrate its capabilities using a model of Corynebacterium tuberculostearicum. journals.asm.org/doi/full/10…

MCC: automated mass and charge curation at the genome scale applied to C. tuberculostearicum |...

The rise of antibiotic resistance has made it essential to explore alternative treatments for bacterial infections, particularly those caused by respiratory tract colonizers like Corynebacterium...

journals.asm.org
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From metabolic networks to whole-cell models: standards are essential for making computational models reusable, interoperable & reproducible. Our new review looks at what 20+ years of systems biology standardization can teach us about the challenges ahead. 🧬
Prof. Dr. Andreas Dräger@dr_draeSep 6
How do standards evolve as systems biology models become more complex? Together with Dario Eltzner & Lea Morschel, we review 20+ years of standards in metabolic, multi-scale & whole-cell modeling and what established communities can teach emerging ones. doi.org/10.1016/j.coisb.2026…
Standards are not the starting point of successful modeling communities but the result of shared abstractions, convergent practice, and supporting software ecosystems. Whole-cell modeling is still developing these prerequisites, suggesting an evolutionary rather than prescriptive path toward standardization.

ALT Standards are not the starting point of successful modeling communities but the result of shared abstractions, convergent practice, and supporting software ecosystems. Whole-cell modeling is still developing these prerequisites, suggesting an evolutionary rather than prescriptive path toward standardization.

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Bioinformatics and Data Analytics Team (BioDatA) retweeted
Prof. Dr. Andreas Dräger@dr_draeJul 23
A few impressions from the 11th SysMod Meeting at ISMB 2026. Thanks to everyone who contributed to a fantastic day of systems biology, computational modeling, and great discussions! #ISMB2026 #SysMod #SystemsBiology #ComputationalBiology
The room was packed with nearly 190 people following Shayn Peirce-Cottler's keynote "From Single-Cell Decisions to Tissue-Scale Disease: A Multiscale Modeling Framework". We had many exciting speakers. The second keynote was delivered by Jason Papin "Predicting microbial metabolic function for therapeutic development". Gideon Idumah: Metabolic signatures of immune checkpoint inhibitor response in gynecologic cancers: Insights from flux balance analysis; the 2nd Poster Prize goes to Blain Bates: Data selection significantly impacts automated reconstruction of genome-scale metabolic networks; the 3rd Poster Prize goes to August George: ChatGEM: An Agentic System for In Silico Genome-Scale Metabolic Engineering.

ALT The room was packed with nearly 190 people following Shayn Peirce-Cottler's keynote "From Single-Cell Decisions to Tissue-Scale Disease: A Multiscale Modeling Framework". We had many exciting speakers. The second keynote was delivered by Jason Papin "Predicting microbial metabolic function for therapeutic development". Gideon Idumah: Metabolic signatures of immune checkpoint inhibitor response in gynecologic cancers: Insights from flux balance analysis; the 2nd Poster Prize goes to Blain Bates: Data selection significantly impacts automated reconstruction of genome-scale metabolic networks; the 3rd Poster Prize goes to August George: ChatGEM: An Agentic System for In Silico Genome-Scale Metabolic Engineering.

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Morgen #LangeNachtDerWissenschaften um 18 Uhr im Hörsaal 3.07 des Instituts für Informatik der @UniHalle:
Prof. Dr. Andreas Dräger@dr_draeJul 2
Morgen, 18 Uhr #LangeNachtDerWissenschaften der @UniHalle: „Lebewesen im Rechner: Was biologische Simulationen heute schon leisten“ Wie helfen Computermodelle, Antibiotikaresistenzen zu bekämpfen oder neue antivirale Therapien zu entwickeln? Illustration ist KI. Der Vortrag nicht
Die Illustration wurde mittels KI erstellt. Der Vortrag nicht.

ALT Die Illustration wurde mittels KI erstellt. Der Vortrag nicht.

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We presented recent work at COBRA 2026: ✓ Tools for systematic reconstruction & curation of GEMs, enabling AI-supported analysis across biological systems. ✓ With refineGEMs and SPECIMEN, we focus on standardization, reproducibility, and scalable multi-omics data integration. – at Potsdam, Germany
Prof. Dr. Andreas Dräger@dr_draeApr 1
At COBRA 2026, I presented our work on model reconstruction & curation tools enabling AI-supported analysis of biological systems, followed by applications in respiratory health and infections and in renewable energy via microbial biocatalysts. Great discussions and organization!
Top: Andreas Dräger presenting software solutions and their application towards building an AI-based factory for generating genome-scale metabolic models. Bottom: Group picture of all participants of this year's COBAR conference in Potsdam.

ALT Top: Andreas Dräger presenting software solutions and their application towards building an AI-based factory for generating genome-scale metabolic models. Bottom: Group picture of all participants of this year's COBAR conference in Potsdam.

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Dario Eltzner from our group highlighted his recent work on harnessing data resources and AI methods for computational modeling in systems biology.
Prof. Dr. Andreas Dräger@dr_draeMar 27
Replying to @dr_drae @UniHalle
Dario Eltzner from @UniHalle presenting “Semantic Testing of Metabolic Model Predictions” at the German Conference on Bioinformatics.
Dario Eltzner speaking.

ALT Dario Eltzner speaking.

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Carolin Brune from our research group gave a talk about her automated reconstruction software SPECIMEN at the Central German Conference on Bioinformatics in Halle.
Prof. Dr. Andreas Dräger@dr_draeMar 27
Replying to @dr_drae
Carolin Brune from @UniHalle introduces “SPECIMEN and refineGEMs: Open-Source Python Tools for Streamlined Metabolic Modelling” at the Central German Conference on Bioinformatics.
Carolin Brune talking.

ALT Carolin Brune talking.

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The first session of today at the Central German Conference on Bioinformatics featured a keynote by @EddaKlipp and was chaired by Andreas Dräger, also introducing two presentations from our research group.
Prof. Dr. Andreas Dräger@dr_draeMar 27
Replying to @dr_drae
@EddaKlipp from @HumboldtUni gives the first keynote speech of the second day of the Central German Conference on Bioinformatics about “Thermodynamically Explicit (TDE) Kinetics”.
Edda Klipp talking.

ALT Edda Klipp talking.

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International teamwork for sustainable biotech 🌍 Integrating bioprocessing & metabolic modeling for PHB production. Thanks to @ascenciomarthaL, @HowardR_Malule (University of Valle 🇨🇴), and partners at the Catholic University of the Maule 🇨🇱 & Kiel University 🇩🇪!
Prof. Dr. Andreas Dräger@dr_draeMar 22
How can we make bioplastics more efficient? In our new paper, we show: it’s not just what you feed; it’s when you feed. Combining fed-batch pulse feeding with flux balance analysis reveals how timing and N-limitation drive PHB accumulation in C. necator. doi.org/10.1002/jctb.70160

Integrating fed‐batch pulse feeding and flux balance analysis for PHB production by Cupriavidus...

BACKGROUND The growing demand for biodegradable polymers has positioned polyhydroxybutyrate (PHB) as a sustainable alternative to petrochemical plastics. Microbial synthesis from renewable, low-cos...

scijournals.onlinelibrary.wiley.com
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Bioinformatics and Data Analytics Team (BioDatA) retweeted
SysMod@cosi_sysmod17 Dec 2025
We are deeply saddened by the passing of @ChaouiyaC (1969–2025) – a cherished member of our community and coordinator (2018-2022), contributing with expertise & kindness. Her work on logical modeling of regulatory networks & dedication to SysMod left a lasting mark. We miss her.
Prof. Dr. Claudine Chaouiya at the 2018 SysMod gathering in Basel, CH

ALT Prof. Dr. Claudine Chaouiya at the 2018 SysMod gathering in Basel, CH

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Our research group for Bioinformatics & Data Analytics at MLU Halle-Wittenberg @UniHalle has a new logo! DNA for life sciences, networks for systems biology and data analytics, colors for natural sciences and medicine — all connected by the outer rings.
The logo of the Bioinformatics and Data Analytics research group at the Martin Luther University Halle-Wittenberg features a DNA molecule and a network graph. The colors unite the faculties for natural sciences, medicine, and the Institute for Computer Science.

ALT The logo of the Bioinformatics and Data Analytics research group at the Martin Luther University Halle-Wittenberg features a DNA molecule and a network graph. The colors unite the faculties for natural sciences, medicine, and the Institute for Computer Science.

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Bioinformatics and Data Analytics Team (BioDatA) retweeted
Prof. Dr. Andreas Dräger@dr_drae25 Oct 2025
The @Google Summer of Code 2025 Mentor Summit took place in Munich 🇩🇪 over two days with over 180 international participants. Thanks to Google for the opportunity to present the outcomes of the #NRNB projects and to lead a session on #Bioinformatics. Pictures by Ronit Banerjee.
Andreas Dräger presenting the outcomes of the student projects of the National Resource for Network Biology (NRNB) at the Google Mentor Summit 2025 in Munich, Germany.

ALT Andreas Dräger presenting the outcomes of the student projects of the National Resource for Network Biology (NRNB) at the Google Mentor Summit 2025 in Munich, Germany.

Andreas Dräger presenting the outcomes of the student projects of the National Resource for Network Biology (NRNB) at the Google Mentor Summit 2025 in Munich, Germany.

ALT Andreas Dräger presenting the outcomes of the student projects of the National Resource for Network Biology (NRNB) at the Google Mentor Summit 2025 in Munich, Germany.

Strawberry Cake and Black Forest Cake

ALT Strawberry Cake and Black Forest Cake

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Bioinformatics and Data Analytics Team (BioDatA) retweeted
Prof. Dr. Andreas Dräger@dr_drae24 Oct 2025
As the representative of the National Resource for Network Biology (#NRNB) at the Google Mentor Summit in Munich 🇩🇪, I am excited to present the outcomes of our Google Summer of Code (#GSoC) projects today and to lead the session on Computational Biology/Bioinformatics.
Strawberry Cake and Black Forest Cake at the opening ceremony of the Google Mentor Summit.

ALT Strawberry Cake and Black Forest Cake at the opening ceremony of the Google Mentor Summit.

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Einige Eindrücke von der #ISMBECCB2025 in Liverpool, zu der über 2½-tausend Teilnehmer angereist waren – darunter auch ehemalige Gruppenmitglieder & namhafte Forscher wie der Nobelpreisträger John Jumper. Unsere Arbeitsgruppe war an der Organisation der SysMod-Sektion beteiligt.
Im Hauptkonfernezsaal fanden über 2½-tausend Leute Platz.

ALT Im Hauptkonfernezsaal fanden über 2½-tausend Leute Platz.

Der von unserer Arbeitsgruppe mitorganisierte SysMod-Track war ein voller Erfolg.

ALT Der von unserer Arbeitsgruppe mitorganisierte SysMod-Track war ein voller Erfolg.

Halles Arbeitsgruppe für Datenanalytik und Bioinformatik trifft sich in Liverpool.

ALT Halles Arbeitsgruppe für Datenanalytik und Bioinformatik trifft sich in Liverpool.

Treffen mit früheren Tübinger Kollegen am Rande der Poster-Sitzung

ALT Treffen mit früheren Tübinger Kollegen am Rande der Poster-Sitzung

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Well done, Anastasiia Grekova 👏🏻👏🏻👏🏻 She previously wrote her bachelor thesis in our lab and then published the results with us as a journal paper. Today she presented her work as a PhD student at @embl about a large-scale meta genetics data collection at #ISMBECCB2025.
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Wir freuen uns, folgendes mitzuteilen: Unsere Forschergruppe konnte letzten Sonntag, am 13. Juli 2025, ihren siebten Gründungstag begehen. 🤩🎉🎊 #MeinXJubiläum
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Bioinformatics and Data Analytics Team (BioDatA) retweeted
Prof. Dr. Andreas Dräger@dr_drae11 Jul 2025
This week, it was Prof. Stephan-Scherb from Geology and I's turn to give our inauguration lecture to finally establish ourselves at Faculty of Natural Sciences III. About 80 guests attended. Afterward, there was a cozy celebration where we could exchange ideas across disciplines.
The lecture hall was fully occupied with approximately 80 viewers.

ALT The lecture hall was fully occupied with approximately 80 viewers.

Translated title of my talk: Walking on metabolic pathways – How data analytics and bioinformatics bring life into the computer. The dean introduces my speech in this scene.

ALT Translated title of my talk: Walking on metabolic pathways – How data analytics and bioinformatics bring life into the computer. The dean introduces my speech in this scene.

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We’re attending #ISMBECCB2025 in Liverpool, United Kingdom from July 20-24. Who else is going? Register here and don’t miss it! invt.io/1txb5t0rumc

I'm participating the ISMB/ECCB 2025 conference, join me!

Register now

invt.io
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We discovered two antiviral compounds and proved their activity against four viruses: influenzae, respiratory syndrome, SARS-CoV-2, and Dengue – demonstrating how scientists from diverse areas can collaborate using computer models & laboratory experiments. dzif.de/en/broad-spectrum-an…
Virologist Prof. Schindler and a colleague evaluate data from an infection experiment. © Universitätsklinikum Tübingen/Verena Müller https://www.dzif.de/en/broad-spectrum-antiviral-compounds-discovered

ALT Virologist Prof. Schindler and a colleague evaluate data from an infection experiment. © Universitätsklinikum Tübingen/Verena Müller https://www.dzif.de/en/broad-spectrum-antiviral-compounds-discovered

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🚨 Study: Computer model predicts two antiviral compounds from single-cell data—now patented ✅ Active vs. SARS-CoV-2, RSV, Dengue & Flu A in cell culture ✅ In vivo COVID-19 efficacy shown in hamsters ✅ Broad-spectrum antivirals for pandemic preparedness nature.com/articles/s42003-0…

Metabolic modeling elucidates phenformin and atpenin A5 as broad-spectrum antiviral drugs against...

Communications Biology - A metabolic modeling approach reveals druggable host cell pathways essential for viral replication across various viruses with minimal cytotoxicity. These findings...

nature.com
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