PXD027780-2

PXD027780 is an original dataset announced via ProteomeXchange.

Title	Connecting multiple microenvironment proteomes uncovers the biology in head and neck cancer
Description	The poor prognosis of head and neck cancer (HNC) is associated with metastasis within the lymph nodes (LNs). Herein, the proteome of 140 multisite samples from a 59-HNC patient cohort, including primary and matched LN-negative or -positive tissues, saliva, and blood cells, reveals insights into the biology and potential metastasis biomarkers that may assist in clinical decision-making. Protein profiles are strictly associated with immune modulation across datasets, and this provides the basis for investigating immune markers associated with metastasis. The proteome of LN metastatic cells recapitulates the proteome of the primary tumor sites. Conversely, the LN microenvironment proteome highlights the candidate prognostic markers. By integrating prioritized peptide, protein, and transcript levels with machine learning models, we identified nodal metastasis signatures in blood and saliva. We present a proteomic characterization wiring multiple sites in HNC, thus providing a promising basis for understanding tumoral biology and identifying metastasis-associated signatures.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:53:27.767.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Adriana Franco Paes Leme
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2021-08-06 03:44:53	ID requested
1	2022-11-21 05:34:56	announced
⏵ 2	2023-11-14 08:53:28	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Machine Learning,Head and Neck Squamous Cell Carcinoma, Buffy Coat, Saliva, Mouth Neoplasms, Proteomics, Lymph Node Metastasis, Prognosis, Immune System, Biomarkers

Adriana Franco Paes Leme
contact affiliation	Laboratório Nacional de Biociências - LNBio; Centro Nacional de Pesquisa em Energia e Materiais - CNPEM; Campinas; SP; 13083-100; Brazil
contact email	adriana.paesleme@lnbio.cnpem.br
lab head
Adriana Franco Paes Leme
contact affiliation	CNPEM
contact email	adriana.paesleme@lnbio.cnpem.br
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/PXD027780

PRIDE project URI

• PRIDE
  1. PXD027780
     1. Label: PRIDE project
     2. Name: Connecting multiple microenvironment proteomes uncovers the biology in head and neck cancer