Metaproteomics provides a range of technical challenges, from sampling to data analysis. In this study we will investigate where we are with respect to software and pipelines configurable or specially developed for metaproteomics data analysis. The participants will receive label-free LC-MS/MS datasets of two mixed samples of known bacterial species composition, where the bacteria were grown under different conditions. The participants are free to use any software they like to answer one or more of the following questions: 1) What is the dominant organism in the sample? 2) Which other genera, species and strains can be identified in the sample, and what are their relative abundances? and 3) What could be inferred about differences in the environments from which the two samples were collected? Specific Aims: 1. Where are we as a field when it comes to analyzing data from multiple species? 2. How are taxonomic compositions of samples determined and reported? 3. What can be inferred about adaptation to the environment of the organisms in a sample? In addition to discussing the 2019 Metaproteomics study, there will be time to have a mini workshop on data analysis workflows such as iPython and R markdown.
|Original language||English (US)|
|Journal||Journal of biomolecular techniques : JBT|
|State||Published - Dec 1 2019|
ASJC Scopus subject areas
- Molecular Biology