ryan pratama

Developed Python-based scripts and workflows for genome-scale metabolic model curation, simulation, visualization, and evaluation. Conducted literature research and integrated biochemical and enzyme-kinetic information into metabolic models. Developed flux-sampling workflows to investigate metabolic flux distributions under oxygen-limited conditions.

Investigated the role of EF-hand motifs in RhoT1 and RhoT2 in mitochondrial anchoring and cytoskeletal interactions in keratinocytes. Performed mammalian cell culture, fluorescence microscopy, and quantitative image analysis of mitochondrial morphology, positioning, alignment, and movement. Used co-immunoprecipitation (Co-IP) and proximity ligation assay (PLA) to investigate interactions between RhoT proteins and keratin. Analyzed mitochondrial phenotypes under different calcium and keratin conditions using

Established practical experience with keratinocyte cell culture and fluorescence microscopy. Performed cloning and site-directed mutagenesis to generate EF-hand mutants of RhoT1 and RhoT2.

Developed Python programming skills and applied version control and collaborative software-development workflows using GitHub. Curated enzyme activity data using literature-derived kcat values and integrated enzyme constraints into a protein allocation model. Evaluated model curation using flux balance analysis (FBA) and comparison with experimental data.

Master's thesis: “EF-Hand Motifs in RhoT1 and RhoT2 Coordinate Mitochondrial Anchoring and Cytoskeletal Binding”

Bachelor's thesis: “The Reconstruction of a Protein Allocation Model for Pseudomonas putida”