PXD042792-1

PXD042792 is an original dataset announced via ProteomeXchange.

Title	Multi-omic analysis of Esophageal Adenocarcinoma uncovers candidate therapeutic targets and cancer-selective post-transcriptional regulation
Description	Efforts to address the poor prognosis associated with esophageal adenocarcinoma (EAC) have been hampered by a lack of biomarkers to identify early disease and therapeutic targets. Despite extensive efforts to understand the somatic mutations associated with EAC over the past decade, a gap remains in understanding how the atlas of genomic aberrations in this cancer impacts the proteome and which somatic variants are of importance for the disease phenotype. We performed a quantitative proteomic analysis of 23 EACs and matched adjacent normal esophageal and gastric tissues. We explored the correlation of transcript and protein abundance using tissue-matched RNAseq and proteomic data from 7 patients and further integrated these data with a cohort of EAC RNA-seq data (n=264 patients), EAC whole-genome sequencing (n=454 patients) and external published datasets.
HostingRepository	PRIDE
AnnounceDate	2024-08-10
AnnouncementXML	Submission_2024-08-10_14:40:53.414.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD042792
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Javier Alfaro
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	2023-06-07 04:59:26	ID requested
⏵ 1	2024-08-10 14:40:54	announced
2	2024-10-22 06:54:35	announced	2024-10-22: Updated project metadata.

10.1016/j.mcpro.2024.100764;

O'Neill JR, Y, é, benes Mayordomo M, Mitulovi, ć G, Al Shboul S, Bedran G, Faktor J, Hernychova L, Uhrik L, G, ó, mez-Herranz M, Kocikowski M, Save V, Vojt, ě, š, ek B, Arends MJ, Hupp T, Alfaro JA, Fitzgerald RC, Edwards PAW, Grehan N, Nutzinger B, Loreno C, Redmond AM, Abbas S, Freeman A, Smyth EC, O'Donovan M, Miremadi A, Malhotra S, Tripathi M, Cheah C, Coles H, Millington C, Devonshire G, Eldridge M, Secrier M, Jammula S, Davies J, Crichton C, Carroll N, Hardwick RH, Safranek P, Hindmarsh A, Sujendran V, Hayes SJ, Ang Y, Sharrocks A, Preston SR, Bagwan I, Save V, Skipworth RJE, Hupp TR, O'Neill JR, Tucker O, Beggs A, Taniere P, Puig S, Contino G, Underwood TJ, Walker RC, Grace BL, Lagergren J, Gossage J, Davies A, Chang F, Mahadeva U, Goh V, Ciccarelli FD, Sanders G, Berrisford R, Chan D, Cheong E, Kumar B, Sreedharan L, Parsons SL, Soomro I, Kaye P, Saunders J, Lovat L, Haidry R, Scott M, Sothi S, Lishman S, Hanna GB, Peters CJ, Moorthy K, Grabowska A, Turkington R, McManus D, Coleman H, Petty RD, Bartlet F, Multi-Omic Analysis of Esophageal Adenocarcinoma Uncovers Candidate Therapeutic Targets and Cancer-Selective Posttranscriptional Regulation. Mol Cell Proteomics, 23(6):100764(2024) [pubmed]

10.6019/PXD042792;

submitter keyword: esophageal adenocarcinoma

Javier Alfaro
contact affiliation	International Center for Cancer Vaccine Science (ICCVS), University of Gdansk, Gdansk, Poland
contact email	javier.alfaro@proteogenomics.ca
lab head
Javier Alfaro
contact affiliation	University of Edinbuirgh
contact email	javier.alfaro@proteogenomics.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/2024/08/PXD042792

PRIDE project URI

• PRIDE
  1. PXD042792
     1. Label: PRIDE project
     2. Name: Multi-omic analysis of Esophageal Adenocarcinoma uncovers candidate therapeutic targets and cancer-selective post-transcriptional regulation