PXD024754

PXD024754 is an original dataset announced via ProteomeXchange.

Title	CIMAGE2.0: An Expanded Tool for Quantitative Analysis of Activity-based Probe Profiling (ABPP) Data
Description	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.
HostingRepository	iProX
AnnounceDate	2021-03-16
AnnouncementXML	Submission_2023-08-28_00:29:50.687.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yuan Liu
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-15 20:48:59	ID requested
1	2021-03-15 20:49:25	announced
⏵ 2	2023-08-28 00:29:51	announced	2023-08-28: Update information.

Gao J, Liu Y, Yang F, Chen X, Cravatt BF, Wang C, CIMAGE2.0: An Expanded Tool for Quantitative Analysis of Activity-Based Protein Profiling (ABPP) Data. J Proteome Res, 20(10):4893-4900(2021) [pubmed]

submitter keyword: CIMAGE, ABPP, Quantification

Chu Wang
contact affiliation	Peking University
contact email	chuwang@pku.edu.cn
lab head
Yuan Liu
contact affiliation	Peking University
contact email	wendao@pku.edu.cn
dataset submitter

iProX dataset URI