PXD019363

PXD019363 is an original dataset announced via ProteomeXchange.

Title	A simple method to quantify protein abundances from one thousand cells
Description	The rise of single-cell transcriptomics has created an urgent need for similar approaches that use a minimal number of cells to quantify expression levels of proteins. We integrated and optimized multiple recent developments to establish a proteomics workflow to quantify proteins from as few as 1,000 mammalian stem cells. The method uses chemical peptide labeling, does not require specific equipment other than cell lysis tools, and quantifies >2,500 proteins with high reproducibility. We validated the method by comparing mouse embryonic stem cells and in vitro differentiated motor neurons. We identify differentially expressed proteins with small fold-changes, and a dynamic range in abundance similar to that of standard methods. Protein abundance measurements obtained with our protocol compare well to corresponding transcript abundance and to measurements using standard inputs. The protocol is also applicable to other systems, such as FACS-purified cells from the tunicate Ciona. Therefore, we offer a straightforward and accurate method to acquire proteomics data from minimal input samples.
HostingRepository	PRIDE
AnnounceDate	2020-07-16
AnnouncementXML	Submission_2020-07-16_03:30:15.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shuvadeep Maity
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Ciona robusta; NCBI TaxID: 1774208;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-24 23:22:20	ID requested
⏵ 1	2020-07-16 03:30:16	announced

Vitrinel B, Iannitelli DE, Mazzoni EO, Christiaen L, Vogel C, Simple Method to Quantify Protein Abundances from 1000 Cells. ACS Omega, 5(25):15537-15546(2020) [pubmed]

submitter keyword: Mouse, cell culture, ESC, Neuron, Ciona

Christine Vogel
contact affiliation	Associate Professor, Center for Genomics and Systems Biology, Dept of Biology, New York University
contact email	cv31@nyu.edu
lab head
Shuvadeep Maity
contact affiliation	Assistant research Scientist
contact email	sm6622@nyu.edu
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/2020/07/PXD019363

PRIDE project URI

• PRIDE
  1. PXD019363
     1. Label: PRIDE project
     2. Name: A simple method to quantify protein abundances from one thousand cells