PXD050426

PXD050426 is an original dataset announced via ProteomeXchange.

Title	Multiplexed Proteome Profiling of Targeted Protein Degradation With Data-Independent Acquisition-Based Mass Spectrometry
Description	Targeted protein degradation (TPD) has become a powerful and promising tool that can effective trigger the degradation of specific disease-related proteins utilizing the endogenous pathways of the organism. However, the global proteomic profiling of TPD with multiple dimensions remains lacking since traditional methods of protein quantification are low-throughput and time-consuming. Mass spectrometry (MS)-based quantitative proteomics have been used in TPD research. The quantification with isobaric mass tagging has the problems such as preference for high-abundance species, high cost and ratio compression effects. Here, we employed data-independent acquisition (DIA) MS with multiplexed proteome profiling of TPD, termed DIA-MPT, to implement the label-free proteomic quantitation with satisfactory reproducibility and high accuracy. We demonstrated the power of DIA-MPT for comprehensive profiling of proteolysis targeting chimera (PROTAC) degraders of bromodomain and extra-terminal (BET) and signal transducer and activator of transcription 3 (STAT3) with pharmacodynamic response and drug sensitivity analysis. Consequently, DIA-MPT has potential as a new platform for high-throughput, flexible, and comprehensive multidimensional proteomic profiling of TPD.
HostingRepository	iProX
AnnounceDate	2024-03-06
AnnouncementXML	Submission_2024-03-12_22:54:02.006.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yuying Suo
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606; scientific name: Mus musculus; NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF; timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2024-03-06 17:52:11	ID requested
1	2024-03-06 17:52:45	announced
⏵ 2	2024-03-12 22:54:02	announced	2024-03-13: Update information.

Suo Y, Du D, Chen C, Zhu H, Wang X, Song N, Lu D, Yang Y, Li J, Wang J, Luo Z, Zhou B, Luo C, Zhou H, Uncovering PROTAC Sensitivity and Efficacy by Multidimensional Proteome Profiling: A Case for STAT3. J Med Chem, 67(6):4804-4818(2024) [pubmed]

submitter keyword: Targeted protein degradation, Mass spectrometry-based Proteomics, Data-independent Acquisition, Drug sensitivity

Hu Zhou
contact affiliation	Shanghai Insititute of Materia Medica
contact email	zhouhu@simm.ac.cn
lab head
Yuying Suo
contact affiliation	Shanghai Insititute of Materia Medica
contact email	s20-suoyuying@simm.ac.cn
dataset submitter

iProX dataset URI