The waterborne bacterium Legionella pneumophila is the aetiological agent of Legionnaire’s disease, a severe type of pneumonia. To better the understanding of its response to environmental stress, the transcriptomic response of L. pneumophila to 9 stress conditions was investigated in an RNA-Sequencing differential expression analysis.
This analysis was undertaken for my final year undergraduate research project at Imperial College London, under supervision of Dr Tiago Costa with data kindly provided by Kemal Avican at Umea University.
1. DATA:
Contains L. pneumophila gene KEGG annotations and the names of Dot/Icm secretion system machinery and effector gene names.
2. SCRIPTS:
i. BLAST.sh: script to automate BLASTp searches of online nr database from the command line.
ii. FYP_DE_functions.R : source script of functions written for this project.
iii. FYP_load_data.R : script to load and process DE data.
iv. FYP_DE_analysis.R : complete data analysis script for this project.