Saez-Rodriguez Group

Systems biomedicine

Mahmoud Ibrahim

I received my BSc degree in Pharmacy and Biotechnology in 2008 and my MSc degree in systems biology in 2012. During this time, I worked on protein production in the methylotrophic yeast Hansenula polymorpha at Rhein-Minapharm Biogenetics in Egypt, and visited the University of Stuttgart, with support from the DAAD, to work on simulation methods for molecular networks with time-varying topology. From 2013 to 2017 I was a PhD student at the group of Prof. Uwe Ohler at the Max-Delbrück Center for Molecular Medicine in Berlin, with support from the MDC-NYU exchange program. During this time, I worked in close collaboration with the lab of Prof. Esteban Mazzoni at New York University developing machine learning methods to understand gene regulation during direct cell fate programming. In March 2017, I joined the COMBINE institute at RWTH-Aachen with Prof. Julio Saez-Rodriguez where I will be working with the lab of Dr. Rafael Kramann at Uniklinikum Aachen to understand molecular mechanisms of fibrosis in kidney and heart.

Research Interests

My main research interest is to understand the determinants of gene regulation networks dynamics. My main focus so far has been on transcription factor and epigenome dynamics and how this relates to gene expression. In the Saez lab, I will be looking at ways to leverage single-cell data and gene editing technologies to build predictive models of transcription factor and gene expression dynamics, focusing on mechanisms of cell differentiation and fibrosis.

Professional career

2017-Present Postdoc at the Saez lab, COMBINE Institute, RWTH Aachen, Germany
2013-2017 PhD student at the Ohler lab, BIMSB@Max-Delbrück-Center, Berlin, Germany and Mazzoni lab, NYU, New York, USA
2012 Visiting Researcher, Institute for Systems Theory and Automatic Control, Stuttgart University, Germany
2010-2012 Clinical Research Associate, MEACRO, Cairo, Egypt
2008-2010 Research Assistant, Rhein-Minapharm Biogenetics, Cairo, Egypt


2017 PhD in Molecular Biology, Humboldt Universität zu Berlin, Summa cum laude
2012 MSc in Digital (Systems) Biology, University of Manchester, Distinction
2008 BSc in Pharmacy and Biotechnology, German University in Cairo, Very Good