Chris Berthiaume

I support reproducible computational research in the Armbrust Lab. My primary focus is working with the SeaFlow instrument, our in-house continuous flow cytometer. I write software to analyze SeaFlow data (seaflowpy, popcycle), manage the data itself, and create systems for realtime collection, processing, and monitoring of SeaFlow data while at sea. I’ve also worked on a number of genomics projects in the Armbrust Lab involving RNA microarrays, Sanger and 454 EST library creation, SOLiD and Illumina short-read transcriptomes and genomes, and de novo SOLiD short-read metagenomic assemblies.

github: https://github.com/ctberthiaume

Publications

2019

  1. François Ribalet, Chris Berthiaume, Annette Hynes, Jarred Swalwell, Michael Carlson, Sophie Clayton, Gwenn Hennon, Camille Poirier, Eric Shimabukuro, Angelicque White, and E. Virginia Armbrust
    Scientific Data, Nov 2019
  2. Johanna AL Goldman, Megan J. Schatz, Chris T. Berthiaume, Sacha N. Coesel, Mónica V. Orellana, and E. Virginia Armbrust
    PloS one, 2019

2018

  1. Julie A. Koester, Chris T. Berthiaume, Naozumi Hiranuma, Micaela S. Parker, Vaughn Iverson, Rhonda Morales, Walter L. Ruzzo, and E. Virginia Armbrust
    Scientific reports, 2018

2016

  1. Jeffrey W. Turner, Chris T. Berthiaume, Rhonda Morales, E. Virginia Armbrust, and Mark S. Strom
    Elementa: Science of the Anthropocene, Jul 2016

2015

  1. S. A. Amin, L. R. Hmelo, H. M. Tol, B. P. Durham, L. T. Carlson, K. R. Heal, R. L. Morales, C. T. Berthiaume, M. S. Parker, B. Djunaedi, A. E. Ingalls, M. R. Parsek, M. A. Moran, and E. V. Armbrust
    Nature, Jun 2015
  2. Gwenn MM Hennon, Justin Ashworth, Ryan D. Groussman, Chris Berthiaume, Rhonda L. Morales, Nitin S. Baliga, Mónica V. Orellana, and E. V. Armbrust
    Nature Climate Change, 2015

2014

  1. Sara J. Bender, Colleen A. Durkin, Chris T. Berthiaume, Rhonda LM Morales, and E. Virginia Armbrust
    Frontiers in Marine Science, 2014
  2. Jeff S. Bowman, Chris T. Berthiaume, E. Virginia Armbrust, and Jody W. Deming
    FEMS microbiology ecology, 2014

2012

  1. Adrian Marchetti, David M. Schruth, Colleen A. Durkin, Micaela S. Parker, Robin B. Kodner, Chris T. Berthiaume, Rhonda Morales, Andrew E. Allen, and E. Virginia Armbrust
    Proceedings of the National Academy of Sciences, Feb 2012
  2. Vaughn Iverson, Robert M. Morris, Christian D. Frazar, Chris T. Berthiaume, Rhonda L. Morales, and E. Virginia Armbrust
    Science, Feb 2012

2008

  1. Thomas Mock, Manoj Pratim Samanta, Vaughn Iverson, Chris Berthiaume, Matthew Robison, Karie Holtermann, Colleen Durkin, Sandra Splinter BonDurant, Kathryn Richmond, Matthew Rodesch, Toivo Kallas, Edward L. Huttlin, Francesco Cerrina, Michael R. Sussman, and E. Virginia Armbrust
    Proceedings of the National Academy of Sciences, Feb 2008

2004