CIMAGE2.0: An Expanded Tool for Quantitative Analysis of Activity-based Probe Profiling (ABPP) Data

ABSTRACT: Activity-based Protein Profiling (ABPP) is a powerful chemo-proteomic method to study proteins’ activity, modifications and interactions in a high-throughput manner. In ABPP experiments, accurate quantification is crucial to determine the extent of probe labeling at the level of either target proteins or specific side chains. CIMAGE has been developed as an in-house quanti-fication software specifically designed for ABPP data analysis, which incorporates 1) relaxed peak extraction algorithm and 2) stringent post-quantification checks for efficient and accurate quantification. It also can generate table and image data for users to conveniently visualize their results. Here, we provided a retrospective introduction of the software and described our recent upgrade efforts to enable 1) interfacing with different database search engines as input and 2) triplex quantifica-tion of ABPP data by reductive dimethylation. We showed that the updated CIMAGE can maintain its ability to quantify ABPP data with dramatic depth and high accuracy, and it also has similar quantification performance in benchmarked SILAC data as compared to MaxQuant. We believe CIAMGE will continue to serve as a powerful analytical tool for ABPP studies.

ORGANISM(S): Homo Sapiens

SUBMITTER: Chu Wang  

PROVIDER: PXD024754 | iProX | Tue Mar 16 00:00:00 GMT 2021

REPOSITORIES: iProX