dia-PASEF Proteomics of Tumor and Stroma LMD Enriched from Archived HNSCC Samples DOI Creative Commons
Aswini Panigrahi, Allison L. Hunt, Diego M. Assis

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 10, 2024

We employed laser microdissection to selectively harvest tumor cells and stroma from the microenvironment of formalin-fixed, paraffin-embedded head neck squamous cell carcinoma (HNSCC) tissues. The captured HNSCC tissue fractions were analyzed by quantitative mass spectrometry-based proteomics using a data independent analysis approach. In paired samples, we achieved excellent proteome coverage having quantified 6,668 proteins with median coefficient variation under 10%. observed significant differences in relevant functional pathways between spatially resolved regions. Our results identified extracellular matrix (ECM) as major component enriched stroma, including many cancer associated fibroblast signature this compartment. demonstrate potential for comparative deep very low starting input scalable format that is useful decipher alterations stromal microenvironment. Correlating such clinical features or disease progression will likely enable identification novel targets classification interventions.

Language: Английский

Gemcitabine Alters Phosphatidylcholine Metabolism in Mouse Pancreatic Tumors DOI
Nav Raj Phulara,

Chiaki Tsuge Ishida,

Peter J. Espenshade

et al.

Journal of Proteome Research, Journal Year: 2025, Volume and Issue: unknown

Published: Feb. 19, 2025

Pancreatic ductal adenocarcinoma (PDAC) is among the deadliest diseases, despite advancements in elucidating tumor biology and developing novel therapeutics. Importantly, lipids, such as phospholipids, are crucial for survival proliferation of cells. However, impact chemotherapeutic drugs on phospholipid metabolism PDAC remains poorly understood. Gemcitabine (a nucleoside analogue) a first-line drug treatment, but its clinical effectiveness limited by multiple factors. Herein, we employed matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI MSI) proteomics approaches to investigate gemcitabine-induced lipid alterations mouse pancreatic tumors following gemcitabine treatment (n = 3, control tumors; n gemcitabine-treated tumors). From MALDI MSI experiments, observed elevated levels several phosphatidylcholines (PCs), PC(30:0), PC(32:3), PC(34:2), PC(36:1), PC(36:2), tissues compared control. In addition, data revealed differential abundance phospholipid-binding proteins response treatments. Furthermore, endoplasmic reticulum stress-related exhibited high expression tissues. Altogether, our provide important insights into PC treatment. targeting altered during therapy might help combat cancer.

Language: Английский

Citations

0
dia-PASEF Proteomics of Tumor and Stroma LMD Enriched from Archived HNSCC Samples DOI Creative Commons
Aswini Panigrahi, Allison L. Hunt, Diego M. Assis

et al.

ACS Omega, Journal Year: 2025, Volume and Issue: unknown

Published: March 25, 2025

We employed laser microdissection to selectively harvest histology-resolved tumors and stroma from formalin-fixed, paraffin-embedded head neck squamous cell carcinoma (HNSCC) tissues. Peptide digests the LMD-enriched HNSCC tissue were analyzed by quantitative mass-spectrometry-based proteomics using a data independent analysis approach. In paired samples, excellent proteome coverage was achieved, having quantified 6668 proteins with median coefficient of variation under 10%. Significant differences in relevant functional pathways between tumor regions observed. Extracellular matrix (ECM) identified as major component enriched stroma, including many cancer-associated fibroblast signature this compartment. demonstrate potential for comparative deep very low starting input scalable format. Correlating such results clinical features or disease progression will likely enable identification novel targets classification interventions.

Language: Английский

Citations

0
The glycosylation landscape of prostate cancer tissues and biofluids DOI
Jordan P. Hartig, Lyndsay E.A. Young,

Grace Grimsley

et al.

Advances in cancer research, Journal Year: 2024, Volume and Issue: unknown, P. 1 - 30

Published: Jan. 1, 2024

Language: Английский

Citations

3
dia-PASEF Proteomics of Tumor and Stroma LMD Enriched from Archived HNSCC Samples DOI Creative Commons
Aswini Panigrahi, Allison L. Hunt, Diego M. Assis

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 10, 2024

We employed laser microdissection to selectively harvest tumor cells and stroma from the microenvironment of formalin-fixed, paraffin-embedded head neck squamous cell carcinoma (HNSCC) tissues. The captured HNSCC tissue fractions were analyzed by quantitative mass spectrometry-based proteomics using a data independent analysis approach. In paired samples, we achieved excellent proteome coverage having quantified 6,668 proteins with median coefficient variation under 10%. observed significant differences in relevant functional pathways between spatially resolved regions. Our results identified extracellular matrix (ECM) as major component enriched stroma, including many cancer associated fibroblast signature this compartment. demonstrate potential for comparative deep very low starting input scalable format that is useful decipher alterations stromal microenvironment. Correlating such clinical features or disease progression will likely enable identification novel targets classification interventions.

Language: Английский

Citations

0