PXD028954

PXD028954 is an original dataset announced via ProteomeXchange.

Title	Quantitative proteomic analysis of proteins bound to rs452384-T or rs452384-C
Description	This project focuses on the functional characterization of a risk variant (SNP) implicated in the predisposition to uveal melanoma, rs452384. We sought to determine whether some nuclear factors could bind with allele-specificity a DNA sequence centered around rs452384 to regulate gene expression. We sought to identify by quantitative mass spectrometry the nuclear proteins bound to double-stranded DNA probes with identical DNA sequences except for rs452384-C or T alleles in the center of the probe. The goal was to quantify the binding of transcription factors to the DNA probes, and to select those enriched (or specific) to the C or T allele of rs452384. To identify proteins specifically bound to rs452384, we compared binding partners to those obtained with a negative control probe known not to recognize any transcription factor.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:53:38.062.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Victor Laigle
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2021-10-05 08:16:21	ID requested
1	2022-11-15 05:33:04	announced
⏵ 2	2023-11-14 08:53:38	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: DNA-protein interaction, transcription factors, allele-specific binding,rs452384

Damarys Loew
contact affiliation	Head of the Curie Institute Mass Spectrometry Platform
contact email	damarys.loew@curie.fr
lab head
Victor Laigle
contact affiliation	Mass Spectrometry Proteomics Facility (LSMP) - Institut Curie
contact email	victor.laigle@curie.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/2022/11/PXD028954

PRIDE project URI

• PRIDE
  1. PXD028954
     1. Label: PRIDE project
     2. Name: Quantitative proteomic analysis of proteins bound to rs452384-T or rs452384-C