PXD022287

PXD022287 is an original dataset announced via ProteomeXchange.

Title	A dataset for training/testing machine learning models of peptide feature detection: Human HELA LC-MSMS
Description	We introduce MSTracer, a tool for peptide feature detection from MS1, which incorporates a machine-learning-combined scoring function based on peptide isotopic distribution and peptide intensity shape on the LC-MS map. By using Support Vector Regression (SVR), the quality of detected peptide features is remarkably improved. By utilising Neural Networks (NN), scores that indicate the quality of features are assigned for detected features as well. We use the Human HELA LC-MSMS dataset to train and test the results and compare with MaxQuant, OpenMS, and Dinosaur.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:23:02.803.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD022287
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Xiangyuan Zeng
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized amino-terminal residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-11-02 01:42:03	ID requested
1	2021-06-17 20:20:52	announced
2	2023-11-14 08:52:54	announced	2023-11-14: Updated project metadata.
⏵ 3	2024-10-22 05:23:03	announced	2024-10-22: Updated project metadata.

10.1021/ACS.JPROTEOME.0C01029;

ProteomeXchange project tag: deep learning, benchmarking, machine learning

submitter keyword: Human, LC-MS/MS

Bin Ma
contact affiliation	University of Waterloo
contact email	bin.ma@uwaterloo.ca
lab head
Xiangyuan Zeng
contact affiliation	University of Waterloo
contact email	x25zeng@uwaterloo.ca
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/2021/06/PXD022287

PRIDE project URI

• PRIDE
  1. PXD022287
     1. Label: PRIDE project
     2. Name: A dataset for training/testing machine learning models of peptide feature detection: Human HELA LC-MSMS