Dataset Information

Proteome and phosphoproteome signatures of recurrence for HPV+ head and neck squamous cell carcinoma

ABSTRACT: Head and neck squamous cell carcinoma (HNSCC) is the 6th most common cancer worldwide and the human papillomavirus (HPVP+P)-driven subtype is the fastest rising in North America. Although most cases of HPV+ HNSCC respond to radiation and chemotherapy in combination with surgery, up to 20% of patients recur after primary treatment with poor prognosis. To gain insights into the mechanism of recurrence to inform patient stratification and precision treatment, we carried out RNA-seq analysis on 43 HPV+ HNSCC specimens, of which 15, including 7 recurrent tumors, were analyzed by quantitative mass spectrometry. The proteome and phosphoproteome, but not the transcriptome, were found to be distinct between the recurrent and non-recurrent tumors. Specifically, recurrent tumors featured a pro-fibrotic and immune suppressive tumor microenvironment (TME) characterized with more abundant cancer associated fibroblasts, extracellular matrix (ECM), neutrophils and suppressive myeloid cells, increased potential for epithelial-mesenchymal transition and defective T cell function, accompanied by aberrant changes in the corresponding signaling pathways. Mechanistically, kinome reprogramming played a pivotal role in mediating recurrence through regulating TME remodelling, cytoskeletal reorganization, cell adhesion, neutrophil function, and coagulation. Besides providing systems-level insights into the molecular basis of recurrence, our work led to the identification of numerous mechanism-based biomarkers and therapeutic targets that may aid future endeavours of developing prognostic biomarkers and precision medicine for recurrent HPV+ HNSCC.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Tonsil, Peripheral Blood Mononuclear Cell

DISEASE(S): Head And Neck Squamous Cell Carcinoma

SUBMITTER: Tomonori Kaneko

LAB HEAD: Shawn SC Li

PROVIDER: PXD030343 | Pride | 2022-06-01

REPOSITORIES: pride

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Dataset's files

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			Action	DRS
	2021-07-19-decoys-reviewed-contam-UP000005640.fas	Other
	checksum.txt	Txt
	tk_20210214_HNpY_A1_15ul.mzML	Mzml
	tk_20210214_HNpY_A1_15ul.pepXML	Pepxml
	tk_20210214_HNpY_A1_15ul.raw	Raw

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Proteome and phosphoproteome signatures of recurrence for HPV<sup>+</sup> head and neck squamous cell carcinoma.

Kaneko Tomonori T Zeng Peter Y F PYF Liu Xuguang X Abdo Rober R Barrett John W JW Zhang Qi Q Nichols Anthony C AC Li Shawn Shun-Cheng SS

Communications medicine 20220730

<h4>Background</h4>Head and neck squamous cell carcinoma (HNSCC) is the sixth most common cancer worldwide and the human papillomavirus (HPV<sup>+</sup>)-driven subtype is the fastest rising cancer in North America. Although most cases of HPV<sup>+</sup> HNSCC respond favorably to the treatment via surgery followed by radiochemotherapy, up to 20% recur with a poor prognosis. The molecular and cellular mechanisms of recurrence are not fully understood.<h4>Methods</h4>To gain insights into the mec ...[more]

PMID: 35919862

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