PXD007968

PXD007968 is an original dataset announced via ProteomeXchange.

Title	A quantitative mass spectrometry-based approach to monitor the dynamics of endogenous chromatin-associated protein complexes
Description	Understanding the dynamics of endogenous protein-protein interactions in complex networks is pivotal in deciphering the mechanisms underlying diseases such as cancer. To enable the in-depth analysis of protein interactions in chromatin-associated protein complexes, we have previously developed a method termed RIME (Rapid Immunoprecipitation Mass spectrometry of Endogenous proteins). Here, we present a quantitative multiplexed method (qPLEX-RIME), which integrates RIME with isobaric labelling and tribrid mass spectrometry for the study of protein interactome dynamics in a quantitative fashion with increased sensitivity. Using the qPLEX-RIME method, we delineated the temporal changes of the Estrogen Receptor alpha (ERα) interactome in breast cancer cells treated with 4-hydrotamoxifen and we successfully identified endogenous ERα-associated proteins in human Patient Derived Xenograft (PDX) tumours and in primary human breast cancer clinical tissue. Our results demonstrate that the combination of RIME with isobaric labelling offers a powerful tool for the in-depth and quantitative characterization of protein interactome dynamics which is applicable to clinical samples.
HostingRepository	PRIDE
AnnounceDate	2019-03-06
AnnouncementXML	Submission_2019-03-06_02:11:58.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Evangelia Papachristou
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; methylthiolated residue; monohydroxylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2017-10-16 01:50:55	ID requested
1	2018-06-08 14:26:17	announced
2	2018-06-18 01:02:52	announced	Updated publication reference for PubMed record(s): 29899353.
3	2018-06-20 00:30:38	announced	Updated project metadata.
⏵ 4	2019-03-06 02:12:00	announced	Updated project metadata.

Papachristou EK, Kishore K, Holding AN, Harvey K, Roumeliotis TI, Chilamakuri CSR, Omarjee S, Chia KM, Swarbrick A, Lim E, Markowetz F, Eldridge M, Siersbaek R, D'Santos CS, Carroll JS, A quantitative mass spectrometry-based approach to monitor the dynamics of endogenous chromatin-associated protein complexes. Nat Commun, 9(1):2311(2018) [pubmed]

curator keyword: Technical, Biological

submitter keyword: qPLEX-RIME, interactome, isobaric labelling, TMT, proteomics, RIME, Estrogen Receptor alpha, 4-hydrotamoxifen, Patient Derived Xenografts (PDX), breast cancer, clinical samples

Jason Carroll
contact affiliation	Senior Group Leader
contact email	Jason.Carroll@cruk.cam.ac.uk
lab head
Evangelia Papachristou
contact affiliation	Senior Scientific Assistant
contact email	Eva.Papachristou@cruk.cam.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD007968
     1. Label: PRIDE project
     2. Name: A quantitative mass spectrometry-based approach to monitor the dynamics of endogenous chromatin-associated protein complexes