João Pedro dos Santos Fonseca

Centre for Biotechnology and Fine Chemistry (CBQF)

João Pedro dos Santos Fonseca

I have a PhD in Molecular Biology from the University of Vienna, Austria and I worked as a postdoctoral fellow at UC San Francisco, USA before joining Amyris as a Computational Biologist in 2020.

Currently, I am working with the Fermentation BASE team developing and upgrading software tools small- and industrial-scale fermentations. Besides building new cool tools, I am interested in synthetic and systems biology, in particular, the development of genetic circuits for the control of cellular behavior.




Bonny AR*, Fonseca JP*, Park J, El-Samad H. TuNR: Orthogonal Control of Mean and Variability of Endogenous Genes in a Human Cell Line. Nature Communications. 2020. *equal contribution.

Fonseca JP, Weinberg, Z, Aslankoohi E, El-Samad H. Biphasic Response of Protein Kinase A to Cyclic Adenosine Monophosphate Triggers Distinct Epithelial Phenotypes. bioRxiv. 2020

Kuritz K, Bonny AR, Fonseca JP, Allgöwer F. PDE-constrained optimization for estimating population dynamics over cell cycle from static single cell measurements. bioRxiv. 2020.

Fonseca JP*, Bonny AR*, Kumar GR, Ng AH, Town J, Wu QC, Aslankoohi E, Chen SY, Harrigan P, Osimiri LC, Kistler AL, El-Samad, H.  A Toolkit for Rapid Modular Construction of Biological Circuits in Mammalian Cells. ACS Synth Bio. 2019.*equal contribution.

Rosa M, Abraham-Juárez MJ, Lewis MW, Fonseca JP, Tian W, Ramirez V, Luan S, Pauly M, Hake S.The Maize MID-COMPLEMENTING ACTIVITY Homolog CELL NUMBER REGULATOR13/NARROW ODD DWARF Coordinates Organ Growth and Tissue Patterning. Plant Cell. 2017

Researcher Center

Centre for Biotechnology and Fine Chemistry (CBQF)

Researcher type

Post Doc

Academic CV