Phyloinformatics Lab

Current research and past production

The Phyloinformatics Lab’s research program consists of two interrelated components:

  1. Conceptual aspects of molecular phylogenetics and its computational and epidemiological applications, and
  2. Comparative genomics of animals with a focus on host-pathogen systems.

Our general aims are four:

  1. Facilitate resource-efficient molecular analyses and make data from museum biorepositories more readily available to biomedical research.
  2. Improve genomic resources of non-model organisms with a focus on animals of particular medical or environmental interest.
  3. Develop phylogenetics solutions, especially if they can help improve our understanding of zoonosis.
  4. Integrate “omics” technologies (e.g., genomics, transcriptomics, metabolomics, and proteomics) to study complex host-pathogen systems in the context of One Health.

Publications

2024

Anderson Luís da Costa, Paula Prieto-Oliveira, Márcia Duarte-Barbosa, Robert Andreata-Santos, Cristina M. Peter, Thamires Prolo, Fernando Antoneli, Maria Isabel V. G. de Carvalho, Ricardo Durães-Carvalho, Marcelo Ribeiro da Silva Briones, Juliana T. Maricato, Paolo M. A. Zanotto, Denis Jacob Machado, Luiz Mario Ramos Janini
Cells  ·  05 Sep 2024
Shirish Yasa, Sayal Guirales-Medrano, Denis Jacob Machado, Colby T. Ford, Daniel A. Janies
Frontiers in Virology  ·  18 Jul 2024

2023

Vladimir Mashanov, Soji Ademiluyi, Denis Jacob Machado, Robert Reid, Daniel Janies
Frontiers in Neural Circuits  ·  29 Sep 2023

2022

Varnika Mittal, Robert W. Reid, Denis Jacob Machado, Vladimir Mashanov, Daniel A. Janies
BMC Genomic Data  ·  23 Oct 2022
Vladimir Mashanov, Lauren Whaley, Kenneth Davis, Thomas Heinzeller, Denis Jacob Machado, Robert W. Reid, Janice Kofsky, Daniel Janies
Frontiers in Zoology  ·  12 Apr 2022

2021

Denis Jacob Machado, Richard Allen White, Janice Kofsky, Daniel A. Janies
Antimicrobial Stewardship & Healthcare Epidemiology  ·  01 Jan 2021

2020

Victor G.D. Orrico, Taran Grant, Julian Faivovich, Mauricio Rivera‐Correa, Marco A. Rada, Mariana L. Lyra, Carla S. Cassini, Paula H. Valdujo, Walter E. Schargel, Denis J. Machado, Ward C. Wheeler, Cesar Barrio‐Amorós, Daniel Loebmann, Jiří Moravec, Juliana Zina, Mirco Solé, Marcelo J. Sturaro, Pedro L.V. Peloso, Pablo Suarez, Célio F.B. Haddad
Cladistics  ·  13 Sep 2020
Vladimir Mashanov, Jennifer Akiona, Maleana Khoury, Jacob Ferrier, Robert Reid, Denis Jacob Machado, Olga Zueva, Daniel Janies
PLOS ONE  ·  12 May 2020
Jih-Pai Lin, Mong-Hsun Tsai, Andreas Kroh, Aaron Trautman, Denis Jacob Machado, Lo-Yu Chang, Robert Reid, Kuan-Ting Lin, Omri Bronstein, Shyh-Jye Lee, Daniel Janies
Genomics  ·  01 Mar 2020

2019

2018

2017

Taran Grant, Marco Rada, Marvin Anganoy-Criollo, Abel Batista, Pedro Henrique Dias, Adriana Moriguchi Jeckel, Denis Jacob Machado, José Vicente Rueda-Almonacid
South American Journal of Herpetology  ·  01 Sep 2017

2015

2012