PXD010776-3

PXD010776 is an original dataset announced via ProteomeXchange.

Title	Mass spectrometry evaluation of a neuroblastoma SH-SY5Y cell culture protocol
Description	Cell line-based proteomics studies are susceptible to intrinsic biological variation that contributes to increasing false positive claims; most of the methods that follow these changes offer a limited understanding of the biological system. We applied a quantitative proteomic strategy (iTRAQ) to detect intrinsic protein variation across SH-SY5Y cell culture replicates. More than 95% of the quantified proteins presented a coefficient of variation (CV) <20% between biological replicates and the variable proteins, which included cytoskeleton, cytoplasmic and housekeeping proteins, are widely reported in proteomic studies. We recommend this approach as an additional quality control before starting any proteomic experiment.
HostingRepository	PRIDE
AnnounceDate	2018-12-04
AnnouncementXML	Submission_2018-12-04_04:07:15.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	JIMMY RODRIGUEZ
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iTRAQ4plex-116 reporter+balance reagent acylated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2018-08-15 02:37:48	ID requested
1	2018-08-17 04:23:06	announced
2	2018-08-28 08:32:34	announced	Updated publication reference for PubMed record(s): 30145218.
⏵ 3	2018-12-04 04:07:17	announced	Updated project metadata.
4	2024-10-22 04:48:18	announced	2024-10-22: Updated project metadata.

Murillo JR, Pla I, Goto-Silva L, Nogueira FCS, Domont GB, Perez-Riverol Y, S, á, nchez A, Junqueira M, Mass spectrometry evaluation of a neuroblastoma SH-SY5Y cell culture protocol. Anal Biochem, 559():51-54(2018) [pubmed]

curator keyword: Biological

submitter keyword: Cell culture, iTRAQ, quantitative proteomics, biological variation

Magno Junqueira
contact affiliation	Proteomics Unit, Chemistry Institute, Federal University of Rio de Janeiro, Rio de Janeiro - RJ, Brazil
contact email	magnojunqueira@iq.ufrj.br
lab head
JIMMY RODRIGUEZ
contact affiliation	Center of Excellence in Biological and Medical Mass Spectrometry, Biomedical Center D13, Lund University, 221 84 Lund, Sweden.
contact email	esneider007@gmail.com
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/2018/08/PXD010776

PRIDE project URI

• PRIDE
  1. PXD010776
     1. Label: PRIDE project
     2. Name: Mass spectrometry evaluation of a neuroblastoma SH-SY5Y cell culture protocol