PXD029240-1

PXD029240 is an original dataset announced via ProteomeXchange.

Title	Proteogenomic analysis of Human acute myeloid leukemia
Description	Here, we used OpenCustomDB, a web-based tool that uses both sample-specific RNAseq data to identify genomic variants and the OpenProt resource that annotates alternative proteins in addition to canonical proteins. We tested OpenCustomDB with a cohort of 17 patients with acute myeloid leukemia and detected 3026 peptides from alternative proteins, including 208 variants in LC-MS/MS.
HostingRepository	PRIDE
AnnounceDate	2023-05-10
AnnouncementXML	Submission_2023-05-10_10:50:59.744.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	NoéGuilloy
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-10-20 03:06:14	ID requested
⏵ 1	2023-05-10 10:51:03	announced
2	2023-11-14 08:46:10	announced	2023-11-14: Updated project metadata.

Guilloy N, Brunet MA, Leblanc S, Jacques JF, Hardy MP, Ehx G, Lanoix J, Thibault P, Perreault C, Roucou X, OpenCustomDB: Integration of Unannotated Open Reading Frames and Genetic Variants to Generate More Comprehensive Customized Protein Databases. J Proteome Res, 22(5):1492-1500(2023) [pubmed]

submitter keyword: Proteogenomics, Human, altProt, AML

XavierRoucou
contact affiliation	Department of Biochemistry and Functional Genomics, Université de Sherbrooke, Sherbrooke, Québec, Canada
contact email	Xavier.Roucou@usherbrooke.ca
lab head
NoéGuilloy
contact affiliation	Department of Biochemistry and Functional Genomics, Université de Sherbrooke, Sherbrooke, Québec, Canada
contact email	noe.guilloy@usherbrooke.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/2023/05/PXD029240

PRIDE project URI

• PRIDE
  1. PXD029240
     1. Label: PRIDE project
     2. Name: Proteogenomic analysis of Human acute myeloid leukemia