PXD017639-2

PXD017639 is an original dataset announced via ProteomeXchange.

Title	Isolation window optimization using predicted libraries for deep and accurate proteome profiling by data-independent acquisition
Description	In silico spectral library prediction of all possible peptides from whole organisms has a great potential for improving proteome profiling by data-independent acquisition and extending its scope of application. In combination with other recent improvements in the field, including sample preparation, peptide separation and data analysis, we aimed to uncover the full potential of such an advanced DIA strategy by isolation window optimization. The results demonstrate that the combination of high-quality in silico libraries, reproducible and high-resolution peptide separation using micro-pillar array columns as well as neural network supported data analysis enables the use of long MS scan cycles without impairing the quantification performance.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:11:19.766.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joerg Doellinger
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Candida albicans (Yeast); NCBI TaxID: 5476; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Staphylococcus aureus; NCBI TaxID: 1280;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-02-19 22:49:12	ID requested
1	2020-08-25 06:57:09	announced
⏵ 2	2024-10-22 05:11:20	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: isolation window, predicted spectral library, SPEED, quantitative proteomics,data-independent acquisition

Peter Lasch
contact affiliation	Robert Koch-Institute, Centre for Biological Threats and Special Pathogens, Proteomics and Spectroscopy (ZBS6), Berlin, Germany
contact email	LaschP@rki.de
lab head
Joerg Doellinger
contact affiliation	Proteomics and Spectroscopy (ZBS6), Robert Koch-Institute
contact email	Doellingerj@rki.de
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/2020/08/PXD017639

PRIDE project URI

• PRIDE
  1. PXD017639
     1. Label: PRIDE project
     2. Name: Isolation window optimization using predicted libraries for deep and accurate proteome profiling by data-independent acquisition