Fig. 1

Flowchart illustrating the construction of the rust expression browser. RNA-Seq data was collated from 1024 Pst samples and pseduoaligned to the Pst reference transcriptomes (isolates Pst-130 [19] and Pst-104E [21]) and wheat transcriptome version 1.1 [25] using kallisto [26], generating gene expression values (“Data preparation”). Metadata was gathered for each sample and loaded into a MySQL database. Data included where available (i) host species and variety, (ii) host developmental stage, (iii) host tissue type, (iv) fungicide treatment, (v) level of infection, and (vi) collection date and location information (“Metadata integration”). The publicly available expVIP code was cloned from GitHub and transferred to a virtual machine. Metadata, gene expression values and the reference transcriptome were then integrated into the rust expression browser, served to the internet using gunicorn (“Browser initiation”). All computer code used is available as a github repository [27, 28] and metadata files are available via figshare [29]