PXD024134-2

PXD024134 is an original dataset announced via ProteomeXchange.

Title	Optimized Sample Preparation Workflow for Improved Identification of Ghost Proteins
Description	Large scale proteomic strategies rely on database interrogation. Thus, only referenced proteins can be identified. Recently, Alternative Proteins (AltProts) translated from nonannotated Alternative Open reading frame (AltORFs) were discovered using customized databases. Because of their small size which confers them peptide-like physicochemical properties, they are more difficult to detect using standard proteomics strategies. In this study, we tested different preparation workflows for improving the identification of AltProts in NCH82 human glioma cell line. The highest number of identified AltProts was achieved with RIPA buffer or boiling water extraction followed by acetic acid precipitation.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:52:10.922.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tristan Cardon
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-02-11 03:35:52	ID requested
1	2021-02-15 08:20:13	announced
⏵ 2	2023-11-14 08:52:11	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Protein identification,Fractionation,Precipitation,Peptides and proteins,Extraction

Michel Salzet
contact affiliation	Laboratory PRISM-Inserm U1192 university of lille France
contact email	michel.salzet@univ-lille.fr
lab head
Tristan Cardon
contact affiliation	Laboratoire PRISM INSERM U1192
contact email	tristan.cardon@univ-lille.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/2021/02/PXD024134

PRIDE project URI

• PRIDE
  1. PXD024134
     1. Label: PRIDE project
     2. Name: Optimized Sample Preparation Workflow for Improved Identification of Ghost Proteins