PXD003308 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Half decimal place rule . |
Description | Many MS2 spectra in bottom-up proteomics experiments remain unassigned. To improve proteome coverage, we applied the half decimal place rule (HDPR) to remove non-peptidic molecules. The HDPR considers the ratio of the first digit after the decimal point to the full molecular mass and results in a relatively small permitted mass window for most peptides. Although the HDPR has been described previously, it has never been integrated into an acquisition strategy using high resolution mass spectrometers. The HDPR was applied to three technical replicates of an in-solution tryptic digest of HeLa cells which were analysed by LC-MS using a Q Exactive mass spectrometer. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-07 |
AnnouncementXML | Submission_2024-10-07_10:03:11.368.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Christian Koehler |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2015-12-09 01:44:34 | ID requested | |
⏵ 1 | 2024-10-07 10:03:12 | announced | |
Publication List
10.1002/rcm.7780; |
Koehler CJ, Bollineni RC, Thiede B, Application of the half decimal place rule to increase the peptide identification rate. Rapid Commun Mass Spectrom, 31(2):227-233(2017) [pubmed] |
Keyword List
curator keyword: Technical |
submitter keyword: Human, LC-MSMS, mass defect, HDPR, DDA |
Contact List
Bernd Thiede |
contact affiliation | Department of Biosciences, University of Oslo, P.O. Box 1066 Blindern, 0316 Oslo, Norway |
contact email | bernd.thiede@ibv.uio.no |
lab head | |
Christian Koehler |
contact affiliation | University of Oslo |
contact email | christian.koehler@ibv.uio.no |
dataset submitter | |
Full Dataset Link List
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/2022/02/PXD003308 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD003308
- Label: PRIDE project
- Name: Half decimal place rule