Humankind’s most valuable asset and resource are health and time, respectively. Disease afflicts health and depletes time. There is no greater life purpose than the eradication of maladies and the betterment of human health. Humbled by the multiscale and spatiotemporal complexity of disease pathogenesis, I’m inspired by innovative science and technologies to decipher disease biology and make new medicines, and passionately committed to making therapeutic discovery more precise, predictable, and programmable.
Ph.D. — Medical Biophysics, University of Southern California, Los Angeles, CA. Aug 2017 - May 2022 Highlights: 2022 Keck School of Medicine Commencement PhD Student Speaker, Order of Arete, Schlegel Family Endowed Fellow, PhD GEM Associate Fellow. B.Sc. — Biotechnology, Syracuse University, Syracuse, NY. 2015 Highlights: Dean’s scholar, Ronald E. McNair Scholar, LSAMP Scholar.
Vitra Labs, San Francisco, CA, July 2023 - Present Senior Computational Biologist
Building computational and data engineering infrastructure and capabilities for next-generation IVF.
Developing AI/ML and mechanistic modeling for prediction in single cell biology and applications in cell-based therapies for reproductive health.
NextRNA Therapeutics, Boston, MA, May 2022 - June 2023 Computational Biologist II, Team Lead for Data Science and Modeling
Built machine intelligence prediction capabilities in non-codingRNA(ncRNA) biology and RNA-directed therapeutics.
Spearheaded the development and validation of computational methods for lncRNA target identification, ncRNA-protein interactions, RNA structure prediction and analysis.
Lead a team comprised of a data scientist II, a masters co-op intern, and two expert consultants; spearheading collaborative projects with Platform Technology, RNA & Protein Sciences, Biology, and Drug Discovery Chemistry.
Successfully recruited two co-op interns and two expert consultants to support efforts within the Data Science and Modeling activities.
Computationally analyzed the structural and biophysical properties of the Dengue virus (DENV) NS2/NS3 protease complex.
Performed molecular screening, docking, binding affinity analysis, and identified top 40 candidate inhibitors.
Cultured and purified the NS2/NS3 complex and performed in vitro screening for experimental validation of top DENV protease inhibitors.
University of California Berkeley, Berkeley, CA. Summer 2012 Undergraduate Researcher, Environmental Leadership Pathway, ESPM Department
Performed DNA extraction, amplification, and sequencing of COX1 and 28S, two evolutionarily conserved genes in Tahitian plant bugs.
Applied bioinformatics with Bayesian inference methods to calculate phylogenetic probabilities of speciation
Investigated the morphological and genetic speciation of Pseudoloxops (Hemiptera: Miridae) and identified 5 candidate new species.
Data Analytics and Computing: scikit-learn, CARET, PyTorch, Tensorflow, Git, Atom, cloud (AWS), Autodock Vina, RDKit Machine Learning: Supervised and unsupervised learning, classification and regression (RF, NB, SVm), deep neural networks Programming: Python, R, SQL, Bash, Atom, LaTeX Experimental Biology: Single cell multiomics, immunofluorescence staining, microscopy, imaging mass cytometry, protein purification, molecular biology methods Spoken Languages: English (professional fluency), French (professional fluency), Kirundi (native), Swahili (elementary)
Setayesh S.M., Ndacayisaba L.J.,…et al., 2023 Sep 18 Targeted Single Cell Proteomic Analysis Identifies New Liquid Biopsy Biomarkers Associated with Multiple Myeloma. npj Precision Oncology.doi.org/10.1038/s41698-023-00446-0
Ndacayisaba, L.J., Mason, J., Kuhn, P. (2023). Mathematical Oncology to Integrate Multimodal Clinical and Liquid Biopsy Data for the Prediction of Survival. In: Cote, R.J., Lianidou, E. (eds) Circulating Tumor Cells. Current Cancer Research. Springer, Cham.doi.org/10.1007/978-3-031-22903-9_7
Dang M., Wang R., …Ndacayisaba L.J., …et al., 2023 Jun 12. Single Cell Clonotypic and Transcriptional Evolution of Multiple Myeloma Precursor Disease. Cancer Cell.doi.org/10.1016/j.ccell.2023.05.007
Ndacayisaba L.J.(2022). Multimodal Single-cell Biology and Machine Learning to Characterize Plasma Cell Neoplasms. PhD Dissertation. University of Southern California. Los Angeles, CA.
Ndacayisaba L.J. et al., 2022 Nov 3 Characterization of BCMA Expression in Circulating Rare Single Cells of Patients with Plasma Cell Neoplasms. Int J Mol Sci.doi: 10.3390/ijms232113427
Ndacayisaba L.J. et al., 2022 Apr 21, Enrichment-Free Single-Cell Detection and Morphogenomic Profiling of Myeloma Patient Samples to Delineate Circulating Rare Plasma Cell Clones. Current Oncologydoi.org/10.3390/curroncol29050242
Invited Talks and Lectures
PIBBS Summer Bootcamps for incoming 1st year PhD students, Summer 2019, 2020, & 2021. Los Angeles, CA Topics: Programming for Bioscientists. Taught first year PhD students on foundations of computational sciences for bioscientists, with hands-on programming and data visualization in R and Python. ~30 PhD students each summer.
Syracuse University McNair Scholars Annual Symposium Jul. 2020 Jul 17 2020 Virtual Title: Single Cell Biology and Math Modeling to Delineate the Spatiotemporal Progression of Myeloma
ACE the CURE: Summer Undergraduate Program Summer 2020. Jul 2020 Virtual Topics: Predictive Math Modeling. Taught a one week-long bootcamp on predictive machine learning to 17 undergraduates
IMC User Group Meeting at Cedars Sinai: Accelerating Translational Science Through Mass Cytometry. Nov. 2019. Los Angeles, CA Title: Imaging Mass Cytometry in Liquid Biopsy: Proteomic Characterization of Circulating Rare Events in Single Cell Oncology
Novartis Postbaccalaureate Scholars quantitative Biology (qBio) Bootcamp, Co-lecturer. Dec 2016. Cambridge, MA Topics: introductory command line Bash scripting, Python programming, data analysis, and visualization (class of 8 post-baccalaureate scholars) students during a 2-day long quantitative biology bootcamp.
Invited Seminar Speaker, Novartis Summer Scholars Weekly Seminar Series. Jul 2016 . Cambridge, MA Topic: Science Communication, Chalk Talk. Led an hour long seminar to 22 undergraduate summer scholars on giving an effective chalk talk
Proteochemometric Machine Learning Models for Predictive Drug Discovery. Poster. New England Science Symposium (NESS). Apr 2017 Boston, MA
Proteochemometric Machine Learning Models for Predictive Drug Discovery, Target Identification, and Polypharmacology Deconvolution. Poster. Annual Winter Q-bio Meeting. Feb 2017 Kauai, HI
Proteochemometric Machine Learning Models for Predictive Drug Discovery, Target Identification, and Polypharmacology Deconvolution. Talk & Poster. ISCB Student Council Symposium at ISMB. Jul 2016 Orlando, FL
Exploring miRNA Silencing Mechanisms Using Machine Learning Algorithms to Discover Biologically Relevant Pathway Nodes Poster. New England Science Symposium (NESS). Apr 2016 Boston, MA
Exploring miRNA Silencing Mechanisms Using Machine Learning Algorithms. Poster. Annual Biomedical Research Conference for Minority Students (ABRCMS). Nov 2015 Seattle, WA
Exploring miRNA Silencing Mechanisms Using Machine Learning Algorithms. Talk. Leadership Alliance National Symposium (LANS). Jul 2015 Stamford, CT
Prediction and Characterization of Putative Ligand-receptor Interactions in Pseudomonas Aeruginosa. Talk. Ronal E. McNair Scholars Research Symposium. Apr 2015 Syracuse, NY
Ligand Discovery from a Crystal Structure and Homology Models of Sodium-glucose Co-transporters. Poster. Annual Biomedical Research Conference for Minority Students (ABRCMS). Nov 2014 San Antonio, TX
Ligand Discovery from a Crystal Structure and Homology Models of Sodium-glucose Co-transporters. Talk & Poster. UCSF Summer Research Symposium. Aug 2014 San Francisco, CA
Identification of Orthosteric Dengue Protease Inhibitors using Computer-aided Drug Design. Talk. NSF-REU Symposium at The Wadsworth Center. Aug 2013 Albany, NY
Molecular Taxonomy: Exploring the Speciation of Tahitian Plant Bugs. Poster. UC Berkeley ELP Annual Symposium. Jul 2012 Berkeley, CA
Awards and Honors
May 2022: PhD Commencement Student Speaker, Keck School of Medicine of USC’s 2022 graduation
May 2022: Recipient, Order of Arete, USC
Jul 2021: Recipient, Schlegel Family Endowed Fellowship awarded by USC