PXD017052

PXD017052 is an original dataset announced via ProteomeXchange.

Title	Rapid, Deep and Precise Profiling of the Plasma Proteome with Multi-Nanoparticle Protein Corona
Description	We report a highly parallel protein quantitation platform integrating nanoparticle (NP) protein coronas with liquid chromatography-mass spectrometry for large-scale, efficient proteomic profiling. A protein corona is a protein layer adsorbed onto NPs upon contact with biofluids. Varying the physicochemical properties of engineered NPs translates to distinct protein corona patterns enabling differential and reproducible interrogation of biological samples. Spike experiments confirmed a linear signal response. The median coefficient of variation was ~22%. The NP corona formation enables deep sampling of the plasma proteome. We screened 43 NPs and selected a panel of 5, which detected more than 2,000 proteins from 141 plasma samples using a 96-well automated workflow in a pilot cancer classification study. Our streamlined workflow combines depth of coverage and throughput with precise relative quantification based on unique interactions between proteins and a panel of engineered NPs for deep and scalable quantitative proteomic studies and biomarker discovery.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:10:43.119.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Theo Platt
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos; SCIEX instrument model

Revision	Datetime	Status	ChangeLog Entry
0	2020-01-10 01:46:39	ID requested
1	2020-08-11 13:23:01	announced
⏵ 2	2024-10-22 05:10:50	announced	2024-10-22: Updated project metadata.

10.1038/s41467-020-17033-7;

Blume JE, Manning WC, Troiano G, Hornburg D, Figa M, Hesterberg L, Platt TL, Zhao X, Cuaresma RA, Everley PA, Ko M, Liou H, Mahoney M, Ferdosi S, Elgierari EM, Stolarczyk C, Tangeysh B, Xia H, Benz R, Siddiqui A, Carr SA, Ma P, Langer R, Farias V, Farokhzad OC, Rapid, deep and precise profiling of the plasma proteome with multi-nanoparticle protein corona. Nat Commun, 11(1):3662(2020) [pubmed]

submitter keyword: cancer,proteomics, plasma, nano particles

John Blume
contact affiliation	Seer Inc.
contact email	jblume@seer.bio
lab head
Theo Platt
contact affiliation	Seer
contact email	tplatt@seer.bio
dataset submitter

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://ftp.pride.ebi.ac.uk/pride/data/archive/2020/08/PXD017052

PRIDE project URI

• PRIDE
  1. PXD017052
     1. Label: PRIDE project
     2. Name: Rapid, Deep and Precise Profiling of the Plasma Proteome with Multi-Nanoparticle Protein Corona