We develop discovery platforms that enable experimental and computational biologists use our approaches to study the molecular basis of pathogenesis and intervention of infectious diseases.
We welcome collaborations: if you are interested in studying an infectious disease/pathogen using our platforms or if you would like to see your computational tool incorporated into our platforms, do get in touch.
Learn more about our group here.
MolEvolvR | Connectivity Scores
MolEvolvR: A web-app for characterizing proteins using
molecular evolution and phylogeny
bioRxiv 2022.
doi: https://doi.org/10.1101/2022.02.18.461833.
Joseph T
Burke*, Samuel Z Chen*, Jacob D Krol*, Lo M Sosinski*, Faisal S
Alquaddoomi, Vincent P Rubinetti, Evan P Brenner, Ethan P Wolfe, Shaddai
Amolitos, Kellen M Reason, John B Johnson, Janani Ravi#.
[*Co-primary authors; listed alphabetically. #Corresponding
author: janani.ravi@cuanschutz.edu]
Web-app: jravilab.org/molevolvr
Reconciling Multiple Connectivity Scores for Drug
Repurposing
Kewalin Samart*, Phoebe Tuyishime*, Arjun
Krishnan#, Janani Ravi#.
Brief.
Bioinform. 2021 Nov 5;22(6):bbab161. doi: http://doi.org/10.1093/bib/bbab161.
PMID: 34013329;
PMCID: PMC8597919.
[*Co-primary authors. #Corresponding
authors: arjun.krishnan@cuanschutz.edu;
janani.ravi@cuanschutz.edu]
Live doc: jravilab.github.io/connectivity_score_review
Bacterial DciA | Listeria Internalins | Bacterial phage defense | Phage shock stress response
DciA helicase operators exhibit diversity across bacterial
phyla.
Helen C. Blaine*, Joseph T. Burke*, Janani
Ravi#, Christina L. Stallings#
J.
Bacteriology 2022 Aug 16;204(8):e0016322; doi: https://doi.org/10.1128/jb.00163-22
PMID: 35880876;
PMCID: PMC9380583.
[*Co-primary authors. #Corresponding
authors: stallings@wustl.edu;
janani.ravi@cuanschutz.edu]
Data: https://github.com/JRaviLab/dcia_evolution
Novel Internalin P homologs in Listeria ivanovii londoniensis
and Listeria seeligeri.
Kayla N Conner*, Joseph T Burke*,
Janani Ravi#, Jonathan W Hardy#
Microb.
Genomics 2022 Jul;8(7); doi: https://doi.org/10.1099/mgen.0.000828
PMID:
35904424; PMCID: PMC9455699.
[*Co-primary authors.
#Corresponding authors: hardyjon@msu.edu; janani.ravi@cuanschutz.edu]
Data: https://github.com/JRaviLab/inlp_listeria
Phage defence by deaminase-mediated depletion of
deoxynucleotides in bacteria.
Hsueh BY*, Severin GB*, Elg
CA, Waldron EJ, Kant A, Wessel AJ, Dover JA, Rhoades CR, Ridenhour BJ,
Parent KN, Neiditch MB, Ravi J, Top EM, and Waters CM.
Nat.
Microbiol. 2022 Aug;7(8):1210-1220; doi: https://doi.org/10.1038/s41564-022-01162-4
PMID:
35817890; PMCID: PMC9830645.
[*Co-primary authors. Corresponding
author: watersc3@msu.edu]
Data: https://github.com/JRaviLab/phage_defense_avcd
Phage-shock-protein (Psp) Envelope Stress Response:
Evolutionary History & Discovery of Novel Players.
Janani Ravi#, Vivek Anantharaman, Samuel Zorn Chen, Evan P
Brenner, Pratik Datta, L Aravind#, Maria Laura
Gennaro#.
bioRxiv 2020. doi: https://doi.org/10.1101/2020.09.24.301986
[#Corresponding authors: janani.ravi@cuanschutz.edu;
aravind@nih.gov; marila.gennaro@rutgers.edu.]
Web-app: jravilab.shinyapps.io/psp-evolution.
Web-app by JR and SZC.
Ten simple rules to host an inclusive conference.
Rocío Joo*#, Andrea Sánchez-Tapia*, Sara Mortara, Yanina
B Saibene, Heather Turner, Dorothea H Peter, Natalia S Morandeira,
Matthias Bannert, Batool Almazrouq, Elizabeth Hare, Laura Ación, Juan P
Narváez-Gómez, Marcela A Córdoba, Federico Marini, Rita Giordano, Silvia
Canelón, Anicet Ebou, Adithi Upadhya, Joselyn Chávez, Janani
Ravi#.
PLoS Comput. Biol. 2022
Jul;18(7):e1010164. doi: https://doi.org/10.1371/journal.pcbi.1010164
PMID:
35862309; PMCID: PMC9302732.
[*Co-primary authors.
#Corresponding authors: rocio.joo@globalfishingwatch.org;
janani.ravi@cuanschutz.edu]
Repo: github.com/rociojoo/Ten-simple-rules-inclusive-conference.