PXD011695

PXD011695 is an original dataset announced via ProteomeXchange.

Title	Interactive Peptide Spectral Annotator Experimental Data
Description	Abstract Here we present IPSA, an innovative web-based spectrum annotator that visualizes and characterizes peptide tandem mass spectra. A tool for the scientific community, IPSA can visualize peptides collected using a wide variety of experimental and instrumental configurations. Annotated spectra are customizable via a selection of interactive features and can be exported as editable scalable vector graphics to aid in the production of publication-quality figures. Single spectra can be analyzed through provided forms, while multiple peptide spectral matches can be uploaded directly to the server as CSV, MGF, or mzML files. IPSA facilitates the characterization of experimental MS/MS performance through the optional export of fragment ion statistics from one to many peptide spectral matches. This resource is made freely accessible at http://interactivepeptidespectralannotator.com, and the source code is available for inspection at https://github.com/dbrademan/IPSA-dev for custom implementations. This repository contains the raw data, sequence databases, and peptide identifications utilized in the manuscript.
HostingRepository	PRIDE
AnnounceDate	2019-05-15
AnnouncementXML	Submission_2019-05-17_04:49:31.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Dain Brademan
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-11-14 03:20:54	ID requested
1	2019-05-15 00:01:12	announced
⏵ 2	2019-05-17 04:49:33	announced	Updated publication reference for PubMed record(s): 31088857.

Brademan DR, Riley NM, Kwiecien NW, Coon JJ, Interactive Peptide Spectral Annotator: A Versatile Web-based Tool for Proteomic Applications. Mol Cell Proteomics, 18(8 suppl 1):S193-S201(2019) [pubmed]

submitter keyword: Shotgun Proteomics, HCD, ETD, EThcD, ETcaD, AI-ETD, AI-ETD+, NETD

Joshua J. Coon
contact affiliation	Department of Chemistry, University of Wisconsin–Madison, Madison, WI 53706, USA Morgridge Institute for Research, Madison, WI 53715, USA Genome Center of Wisconsin, Madison, WI 53706, USA Department of Biomolecular Chemistry, University of Wisconsin–Madison, Madison, WI 53706, USA
contact email	coon@wisc.edu
lab head
Dain Brademan
contact affiliation	UW-Madison Joshua J. Coon Research Group Chemistry Department
contact email	brademan@wisc.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/2019/05/PXD011695

PRIDE project URI

• PRIDE
  1. PXD011695
     1. Label: PRIDE project
     2. Name: Interactive Peptide Spectral Annotator Experimental Data