Pablo Cárdenas R.

Pablo Cárdenas R.
Massachusetts Institute of Technology | MIT · Department of Biological Engineering

(B. Sc.)
I develop experimental and computational tools to study infectious diseases, from the molecular to the epidemiological.

About

13
Publications
3,516
Reads
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65
Citations
Citations since 2017
12 Research Items
65 Citations
2017201820192020202120222023051015202530
2017201820192020202120222023051015202530
2017201820192020202120222023051015202530
2017201820192020202120222023051015202530
Introduction
Interested in infectious disease, synthetic and systems biology, mathematical and computational modeling, and the ethics involved in these areas –as well as all of science– in the context of improving public health and social welfare. Enthusiastic supporter of open science, open source and open culture.
Additional affiliations
September 2018 - present
Massachusetts Institute of Technology
Position
  • Research Assistant
Description
  • Making molecular and computational tools to control the malaria parasite’s ability to cause disease and enable its use as a platform for systems and synthetic biology as a PhD student at the Niles Lab in MIT BE.
January 2018 - July 2018
Harvard Medical School
Position
  • Researcher
Description
  • Researching the emergence of bacterial persistence as well as noise and interference in synthetic biology circuits using microfluidics and high-throughput microscopy at the Paulsson Lab, Dept. Systems Biology, HMS
August 2017 - January 2018
Eligo Bioscience
Position
  • Research Intern
Description
  • Research intern in synthetic biology, phage and bacterial strain engineering.
Education
September 2018 - July 2023
Massachusetts Institute of Technology
Field of study
  • Biological Engineering
July 2013 - December 2017
Los Andes University (Colombia)
Field of study
  • Biological Sciences

Publications

Publications (13)
Article
Full-text available
CRISPRi-mediated gene regulation allows simultaneous control of many genes. However, highly specific sgRNA-promoter binding is, alone, insufficient to achieve independent transcriptional regulation of multiple targets. Indeed, due to competition for dCas9, the repression ability of one sgRNA changes significantly when another sgRNA becomes expresse...
Article
Full-text available
Functional characterization of the multitude of poorly described proteins in the human malarial pathogen, Plasmodium falciparum, requires tools to enable genome-scale perturbation studies. Here, we present GeneTargeter (genetargeter.mit.edu), a software tool for automating the design of homology-directed repair donor vectors to achieve gene knockou...
Article
Full-text available
Antibiotic-induced alterations in the gut microbiota are implicated in many metabolic and inflammatory diseases, increase the risk of secondary infections and contribute to the emergence of antimicrobial resistance. Here we report the design and in vivo performance of an engineered strain of Lactococcus lactis that altruistically degrades the widel...
Preprint
Full-text available
Genomics is fundamentally changing epidemiological research. However, systematically exploring hypotheses in pathogen evolution requires new modeling tools. Models intertwining pathogen epidemiology and genomic evolution can help understand processes such as the emergence of novel pathogen genotypes with higher transmissibility or resistance to tre...
Article
Full-text available
The human malaria parasite Plasmodium falciparum is globally widespread, but its prevalence varies significantly between and even within countries. Most population genetic studies in P . falciparum focus on regions of high transmission where parasite populations are large and genetically diverse, such as sub-Saharan Africa. Understanding population...
Article
Full-text available
Genomics is fundamentally changing epidemiological research. However, systematically exploring hypotheses in pathogen evolution requires new modeling tools. Models intertwining pathogen epidemiology and genomic evolution can help understand processes such as the emergence of novel pathogen genotypes with higher transmissibility or resistance to tre...
Preprint
Full-text available
Functional characterization of the multitude of poorly-described proteins in the human malarial pathogen, Plasmodium falciparum , requires tools to enable genome-scale perturbation studies. Here we present GeneTargeter (genetargeter.mit.edu), a software tool for automating the design of homology-directed repair donor vectors to achieve gene knockou...
Preprint
Full-text available
CRISPRi-mediated gene repression allows simultaneous control of many genes. However, despite highly specific sgRNA-promoter binding, multiple sgRNAs still interfere with one another by competing for dCas9. We created a dCas9 regulator that adjusts dCas9 concentration based on sgRNAs' demand, mitigating competition in CRISPRi-based logic gates. The...
Article
Full-text available
Bacteriophages represent an alternative solution to control bacterial infections. When interacting, bacteria and phage can evolve, and this relationship is described as antagonistic coevolution, a pattern that does not fit all models. In this work, the model consisted of a microcosm of Salmonella enterica serovar Enteritidis and ϕSan23 phage. Sampl...
Thesis
Full-text available
Este trabajo analiza las relaciones entre ciencia, tecnología y comunidad. Se argumenta que las dinámicas entre las tres, en el marco de los cambios en la ciencia a lo largo del siglo XX, producen la brecha entre el descubrimiento científico y el impacto positivo en la comunidad. Esta brecha en traslación científica puede cerrarse democratizando a...

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