PXD002659

PXD002659 is an original dataset announced via ProteomeXchange.

Title	LC-MS/MS analysis of Daoy and UW228 medulloblastoma cell lines
Description	The goal of this study was to profile the total proteome and transcriptome of the established medulloblastoma cell lines, Daoy and UW228, using label-free nano-LC-MS/MS-based quantitative proteomics and high-throughput RNA sequencing (RNA-Seq), coupled with pathway analysis to identify differentially expressed genes, proteins and signaling pathways with potential as prognostic markers. A total of 14250 and 12870 transcripts were detected for Daoy and UW228, respectively. Proteomic profiling identified 2630 and 1235 proteins in Daoy and UW228, representing 18% and 10% of detected transcripts, respectively. Interestingly, Daoy proteome included >50% unique proteins, while almost 90% of proteins expressed by UW228 were commonly expressed in Daoy. Differential expression of a number of adhesion, cytoskeletal and signaling molecules were observed between the two cell lines. Upregulation of a number of proteins and enrichment of key signaling pathways, including WNT, Sonic hedgehog (SHH) and integrin signaling pathways, were uniquely observed in MB cell lines, in particular in Daoy.
HostingRepository	PRIDE
AnnounceDate	2017-10-27
AnnouncementXML	Submission_2017-10-27_01:17:13.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Susan Fanayan
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	deamidated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-08-04 02:27:44	ID requested
⏵ 1	2017-10-27 01:17:15	announced

Higdon R, Kala J, Wilkins D, Yan JF, Sethi MK, Lin L, Liu S, Montague E, Janko I, Choiniere J, Kolker N, Hancock WS, Kolker E, Fanayan S, Integrated Proteomic and Transcriptomic-Based Approaches to Identifying Signature Biomarkers and Pathways for Elucidation of Daoy and UW228 Subtypes. Proteomes, 5(1):(2017) [pubmed]

curator keyword: Biomedical

submitter keyword: Daoy, UW228, medulloblastoma, LC-MS/MS

Susan Fanayan
contact affiliation	Department of Biomedical Sciences Faculty of Medicine and Health Science Macquarie University
contact email	susan.fanayan@mq.edu.au
lab head
Susan Fanayan
contact affiliation	Biomedical Sciences
contact email	susan.fanayan@mq.edu.au
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/2017/10/PXD002659

PRIDE project URI

• PRIDE
  1. PXD002659
     1. Label: PRIDE project
     2. Name: LC-MS/MS analysis of Daoy and UW228 medulloblastoma cell lines