PXD035636-1

PXD035636 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Evaluation of quantification and normalization strategies for phosphoprotein phosphatase affinity proteomics: application to breast cancer signaling
Description	Accurate quantification of proteomics data is essential for correctly characterizing signaling processes. We have recently developed a chemical proteomic strategy, phosphatase inhibitor beads and mass spectrometry (PIB-MS), to investigate endogenous phosphoprotein phosphatase (PPP) dephosphorylation signaling. Here, we compare the robustness and reproducibility of different quantification methods for optimal performance and ease of implementation. We then apply PIB-MS to an array of breast cancer (BC) cell lines to determine differences in PPP signaling between subtypes. BC is a leading cause of cancer death in women. There are three main subtypes: estrogen receptor-positive (ER+), human epidermal growth factor receptor two positive (HER2+), and triple-negative (TNBC). Furthermore, TNBC has few targeted therapies. Therefore, there is a need to identify novel means for treating breast cancers. Using PIB-MS, we distinguished between TNBC and Non-TNBC based on PPP holoenzyme composition. We identified an increase in PPP interactions with Hippo pathway proteins in TNBC. These interactions suggest that phosphatases in TNBC play an inhibitory role on the Hippo pathway and correlate with increased expression of YAP/TAZ target genes both in TNBC cell lines and in TNBC patients.
HostingRepository	MassIVE
AnnounceDate	2022-11-29
AnnouncementXML	Submission_2022-11-29_12:16:48.626.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Mark Adamo
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Oxidation; Label:13C(6)15N(2); Label:13C(6)15N(4); Carbamidomethyl; TMTpro; Phospho
Instrument	Q Exactive Plus; Orbitrap Fusion Lumos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-29 17:54:06	ID requested
⏵ 1	2022-11-29 12:16:48	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: proteomics, phosphatase, inhibitor, beads, PIB, PPP, dephosphorylation, breast cancer, ER+, HER2+, TNBC, holoenzyme, Hippo, YAP, TAZ

submitter keyword: proteomics, phosphatase, inhibitor, beads, PIB, PPP, dephosphorylation, breast cancer, ER+, HER2+, TNBC, holoenzyme, Hippo, YAP, TAZ

Contact List

Arminja Kettenbach
contact affiliation	The Geisel School of Medicine at Dartmouth
contact email	arminja.n.kettenbach@dartmouth.edu
lab head
Mark Adamo
contact affiliation	Dartmouth College
contact email	mark.e.adamo@dartmouth.edu
dataset submitter

Full Dataset Link List

MassIVE dataset URI
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000090020/

MassIVE dataset URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000090020/