→ Poster doi:10.7490/f1000research.1112748.1
Joseph Greer, Ryan Fellers, Richard LeDuc, Bryan Early, Alexandra Johanna VanNispen, Paul Thomas, Neil Kelleher Abstract
The National Resource for Translational and Developmental Proteomics (NRTDP) at Northwestern University has developed a Galaxy Project based Top-Down proteomics search portal
. This portal allows academic researchers free access to the NRTDP’s most advanced search algorithms in an easy to use and structured way. Academic researchers request access to the portal through the NRTDP webpage
The NRTDP has created a standard workflow that allows academics to easily search their instrument data files. This workflow utilizes NRTDP developed tools to convert instrument data files, search those files, estimate false discovery rate and create a search output tdReport. The tdReport is viewable in another free NRTDP software offering, the Top Down Viewer
After the search has completed, the workflow adds confidently identified proteoforms to the Proteoform Repository at the Consortium for Top Down Proteomics
. As of March, 2016, UniProt includes cross-references to this repository.
The portal is accessible through a local Galaxy instance hosted on Northwestern University Virtual Infrastructure, uses Pulsar (version 0.5.0) to connect to a Windows 10 Server and to Northwestern University’s HPC cluster environment and uses DRMAA to access the Northwestern University scheduler.