PXD015606

PXD015606 is an original dataset announced via ProteomeXchange.

Title	ProteoViz: A toolset for interactive analysis of phosphoproteomics data
Description	Quantitative proteomics generates large datasets with increasing depth and quantitative information. Even after data processing and statistical analysis, interpreting the results and relating their significance back to the system of study remains challenging. Often, this process is performed by scientists with expertise in their field, but limited experience in proteomic or phosphoproteomic analysis. We developed a set of tools for simple, interactive exploration of phosphoproteomics data that can be easily interpreted into biological knowledge. These tools are designed to expedite the processes of reviewing raw data from statistical output, identifying and verifying enriched sequence motifs, and viewing the data from the perspective of functional pathways. Here, we present the workflow and demonstrate its functionality by analyzing a phosphoproteomic data set from two lymphoma cell lines treated with kinase inhibitors.
HostingRepository	PRIDE
AnnounceDate	2020-05-07
AnnouncementXML	Submission_2020-05-07_02:25:52.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD015606
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Stephanie Byrum
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-09-26 03:44:50	ID requested
⏵ 1	2020-05-07 02:33:16	announced

Storey AJ, Naceanceno KS, Lan RS, Washam CL, Orr LM, Mackintosh SG, Tackett AJ, Edmondson RD, Wang Z, Li HY, Frett B, Kendrick S, Byrum SD, ProteoViz: a tool for the analysis and interactive visualization of phosphoproteomics data. Mol Omics, 16(4):316-326(2020) [pubmed]

submitter keyword: phosphoproteomics, TMT, Shiny

Stephanie Diane Byrum
contact affiliation	Department of Biochemistry and Molecular Biology, University of Arkansas for Medical Sciences, Little Rock, AR 72205 Arkansas Children's Research Institute, Little Rock, AR
contact email	sbyrum@uams.edu
lab head
Stephanie Byrum
contact affiliation	UAMS
contact email	sbyrum@uams.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/2020/05/PXD015606

PRIDE project URI

• PRIDE
  1. PXD015606
     1. Label: PRIDE project
     2. Name: ProteoViz: A toolset for interactive analysis of phosphoproteomics data