PXD002948

PXD002948 is an original dataset announced via ProteomeXchange.

Title	Micro-proteomics with iterative data analysis: proteome analysis in C. elegans at the single worm level
Description	Proteomics studies typically analyze proteins at a population level, using extracts prepared from tens of thousands to millions of cells. The resulting measurements correspond to average values across the cell population and can mask considerable variation in protein expression and function between individual cells or organisms. Here, we report the development of micro-proteomics for the analysis of C. elegans, a eukaryote composed of 959 somatic cells and ~1,500 germ cells, measuring the worm proteome at a single organism level to a depth of ~ 3,000 proteins. This includes detection of proteins across a wide dynamic range of expression levels (> 6 orders of magnitude), including many chromatin-associated factors involved in chromosome structure and gene regulation. We apply the micro-proteomics workflow to measure the global proteome response to heat-shock in individual nematodes. This shows variation between individual animals in the magnitude of proteome response following heat-shock, including variable induction of heat-shock proteins. The micro-proteomics pipeline thus facilitates the investigation of stochastic variation in protein expression between individuals within an isogenic population of C. elegans. All data described in this study are available online via the Encyclopedia of Proteome Dynamics (http://www.peptracker.com/epd), an open access, searchable database resource.
HostingRepository	PRIDE
AnnounceDate	2015-11-17
AnnouncementXML	Submission_2015-11-17_04:19:16.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Vackar Afzal
SpeciesList	scientific name: Caenorhabditis elegans; NCBI TaxID: 6239;
ModificationList	2-pyrrolidone-5-carboxylic acid (Glu); deamidated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-09-21 01:56:53	ID requested
⏵ 1	2015-11-17 04:19:17	announced

Bensaddek D, Narayan V, Nicolas A, Murillo AB, Gartner A, Kenyon CJ, Lamond AI, Micro-proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level. Proteomics, 16(3):381-92(2016) [pubmed]

curator keyword: Biological

submitter keyword: c.elegans, eukaryote

Angus Lamond
contact affiliation	Lab Head
contact email	ailamond@dundee.ac.uk
lab head
Vackar Afzal
contact affiliation	School of Life Sciences
contact email	v.z.afzal@dundee.ac.uk
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/2015/11/PXD002948

PRIDE project URI

• PRIDE
  1. PXD002948
     1. Label: PRIDE project
     2. Name: Micro-proteomics with iterative data analysis: proteome analysis in C. elegans at the single worm level