APOSTL: An Interactive Galaxy Pipeline for Reproducible Analysis of Affinity Proteomics Data

作者：Kuenzi Brent M; Borne Adam L; Li Jiannong; Haura Eric B; Eschrich Steven A; Koomen John M; Rix Uwe; Stewart Paul A

来源：Journal of Proteome Research, 2016, 15(12): 4747-4754.

DOI：10.1021/acs.jproteome.6b00660

• affinity proteomics
• SAINT
• SAINTexpress
• Galaxy
• data analysis
• data visualization
• AP-MS
• pipeline
• workflow

With continuously increasing scale and depth of coverage in affinity proteomics (AP-MS) data, the analysis and visualization is becoming more challenging. A number of tools have been developed to identify high-confidence interactions; however, a cohesive and intuitive pipeline for analysis and visualization is still needed. Here we present Automated Processing of SAINT Templated Layouts (APOSTL), a freely available Galaxy-integrated software suite and analysis pipeline for reproducible, interactive analysis of AP-MS data. APOSTL contains a number of tools woven together using Galaxy workflows, which are intuitive for the user to move from raw data to publication-quality figures within a single interface. APOSTL is an evolving software project with the potential to customize individual analyses with additional Galaxy tools and widgets using the R web application framework, Shiny. The source code, data, and documentation are freely available from GitHub (https://github.com/bornea/APOSTL) and other sources.

• 出版日期2016-12