PXD024643-2

PXD024643 is an original dataset announced via ProteomeXchange.

Title	TDFragMapper: Evaluating experimental parameters for confident intact protein characterization in top-down proteomics
Description	New software-tool allowing an easy visualization of fragment ions and thus a rapid evaluation of key experimental parameters on the sequence coverage obtained for the MS/MS analysis of intact proteins. Our tool can deal with multiple fragmentation methods. We demonstrate that TDFragMapper can rapidly highlight the experimental fragmentation parameters that are critical to the characterization of intact proteins of various size using top-down proteomics.
HostingRepository	PRIDE
AnnounceDate	2023-05-14
AnnouncementXML	Submission_2023-05-14_14:17:46.375.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	JonathanDhenin
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Streptococcus dysgalactiae; NCBI TaxID: 1334; scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; 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	2021-03-10 03:26:01	ID requested
1	2021-12-30 14:27:25	announced
⏵ 2	2023-05-14 14:17:47	announced	2023-05-14: Updated project metadata.

Dhenin J, Borges Lima D, Dupr, é M, Chamot-Rooke J, TDFragMapper: a visualization tool for evaluating experimental parameters in top-down proteomics. Bioinformatics, 38(4):1136-1138(2022) [pubmed]

ProteomeXchange project tag: EPIC-XS

submitter keyword: visualization tool,Top-down proteomics, LC-MS/MS

JuliaChamot-Rooke
contact affiliation	Mass Spectrometry for Biology Unit CNRS USR2000 Institut Pasteur France
contact email	julia.chamot-rooke@pasteur.fr
lab head
JonathanDhenin
contact affiliation	Mass Spectrometry for Biology Unit Institut Pasteur Paris
contact email	jonathan.dhenin@pasteur.fr
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/2021/12/PXD024643

PRIDE project URI

• PRIDE
  1. PXD024643
     1. Label: PRIDE project
     2. Name: TDFragMapper: Evaluating experimental parameters for confident intact protein characterization in top-down proteomics