NPJ Precision Oncology最新文献_第5页

Successful unconventional precision treatment of inflammatory hormone receptor-positive breast cancer guided by molecular profiling.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-03-07 DOI: 10.1038/s41698-025-00845-5

Jailan Elayoubi, Yu Zong, Erich J Schwartz

引用次数: 0

Neoadjuvant immune checkpoint inhibitors for hepatocellular carcinoma.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-03-06 DOI: 10.1038/s41698-025-00846-4

Vinita Akula, Lily Chen, Yusuf Acikgoz, Katherine Klein, Betul Gok Yavuz, Lokman Cevik, Tarik Demir, Ashish Manne, Ilyas Sahin, Ahmed Kaseb, Elshad Hasanov

引用次数: 0

Extended spectrum of cancers in PTEN hamartoma tumor syndrome.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-03-06 DOI: 10.1038/s41698-025-00847-3

Lamis Yehia, Gilman Plitt, Ann M Tushar, Darren Liu, Julia Joo, Ying Ni, Sujata Patil, Charis Eng

引用次数: 0

LINE-1 ORF1p expression occurs in clear cell ovarian carcinoma precursors and is a candidate blood biomarker.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-03-06 DOI: 10.1038/s41698-025-00849-1

Pamela R de Santiago, Sho Sato, Stephanie J Zhang, Meaghan C Dougher, Kyle M Devins, Agnes J Bilecz, Sagar Rayamajhi, Gabriel Mingo, Hannah S Rendulich, Yi Feng, Connie Wu, Martin S Taylor, Yelena Zhuravlev, Euihye Jung, Dalia K Omran, Tian-Li Wang, Ie-Ming Shih, Lauren E Schwartz, Sarah Kim, Mark A Morgan, Janos L Tanyi, Kathleen H Burns, Ernst Lengyel, Carlos Parra-Herran, Andrew K Godwin, David R Walt, Ronny Drapkin

{"title":"LINE-1 ORF1p expression occurs in clear cell ovarian carcinoma precursors and is a candidate blood biomarker.","authors":"Pamela R de Santiago, Sho Sato, Stephanie J Zhang, Meaghan C Dougher, Kyle M Devins, Agnes J Bilecz, Sagar Rayamajhi, Gabriel Mingo, Hannah S Rendulich, Yi Feng, Connie Wu, Martin S Taylor, Yelena Zhuravlev, Euihye Jung, Dalia K Omran, Tian-Li Wang, Ie-Ming Shih, Lauren E Schwartz, Sarah Kim, Mark A Morgan, Janos L Tanyi, Kathleen H Burns, Ernst Lengyel, Carlos Parra-Herran, Andrew K Godwin, David R Walt, Ronny Drapkin","doi":"10.1038/s41698-025-00849-1","DOIUrl":"10.1038/s41698-025-00849-1","url":null,"abstract":"Long interspersed element 1 (LINE-1) retrotransposons are repetitive sequences that can move within the genome by an autonomous mechanism. To limit their mutagenic potential, benign cells restrict LINE-1 expression through molecular mechanisms such as DNA methylation and histone modification, but these mechanisms are usually impaired in cancer. Clear cell ovarian carcinoma (CCOC) represents 5-10% of ovarian cancers and is thought to arise from endometriosis. Women with advanced CCOC face poor prognoses, highlighting the importance of understanding early disease pathogenesis. In our study, 33 of 40 cases (over 82%) of CCOC tumors express ORF1p, a LINE-1-encoded protein. We found that LINE-1 de-repression is an early event in CCOC, as ORF1p is enhanced during the transition from typical to atypical endometriosis and persists in invasive cancer. Finally, using single-molecule array (Simoa) assays, we detected ORF1p in patient blood, suggesting it as a potential minimally invasive biomarker for this disease.","PeriodicalId":19433,"journal":{"name":"NPJ Precision Oncology","volume":"9 1","pages":"62"},"PeriodicalIF":6.8,"publicationDate":"2025-03-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11885553/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143573418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Whole-genome analysis of an aggressive metastatic pancreatic solid pseudopapillary neoplasm.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-03-04 DOI: 10.1038/s41698-025-00843-7

Phoebe T M Cheng, James T Topham, Ayman Aldeheshi, Gregory A Taylor, Erin Pleasance, Melissa K McConechy, Jessica M T Nelson, David F Schaeffer, Steven J M Jones, Marco A Marra, Janessa Laskin, Daniel J Renouf

引用次数: 0

Complement activation in tumor microenvironment after neoadjuvant therapy and its impact on pancreatic cancer outcomes.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-03-03 DOI: 10.1038/s41698-025-00848-2

Xiaofei Zhang, Ruoxin Lan, Yongjun Liu, Venu G Pillarisetty, Danting Li, Chaohui L Zhao, Suparna A Sarkar, Weiguo Liu, Iman Hanna, Mala Gupta, Cristina Hajdu, Jonathan Melamed, Michael Shusterman, Jessica Widmer, John Allendorf, Yao-Zhong Liu

{"title":"Complement activation in tumor microenvironment after neoadjuvant therapy and its impact on pancreatic cancer outcomes.","authors":"Xiaofei Zhang, Ruoxin Lan, Yongjun Liu, Venu G Pillarisetty, Danting Li, Chaohui L Zhao, Suparna A Sarkar, Weiguo Liu, Iman Hanna, Mala Gupta, Cristina Hajdu, Jonathan Melamed, Michael Shusterman, Jessica Widmer, John Allendorf, Yao-Zhong Liu","doi":"10.1038/s41698-025-00848-2","DOIUrl":"10.1038/s41698-025-00848-2","url":null,"abstract":"Neoadjuvant therapy (NAT) is increasingly being used for pancreatic ductal adenocarcinoma (PDAC). This study investigates how NAT differentially impacts PDAC's carcinoma cells and the tumor microenvironment (TME). Spatial transcriptomics was used to compare gene expression profiles in carcinoma cells and the TME of 23 NAT-treated versus 13 NAT-naïve PDACs. Findings were validated by single-nucleus RNA sequencing (snRNA-seq) analysis. NAT induces apoptosis and inhibits proliferation of carcinoma cells and coordinately upregulates multiple complement genes (C1R, C1S, C3, C4B and C7) within the TME. Higher TME complement expression following NAT is associated with increased immunomodulatory and neurotrophic cancer-associated fibroblasts (CAFs); more CD4+ T cells; reduced immune exhaustion gene expression, and improved overall survival. snRNA-seq analysis demonstrates C3 complement is mainly upregulated in CAFs. These findings suggest that local complement dynamics could serve as a novel biomarker for prognosis, evaluating treatment response, and guiding therapeutic strategies in NAT-treated PDAC patients.","PeriodicalId":19433,"journal":{"name":"NPJ Precision Oncology","volume":"9 1","pages":"58"},"PeriodicalIF":6.8,"publicationDate":"2025-03-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11876354/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143542910","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Author Correction: Naltriben promotes tumor growth by activating the TRPM7-mediated development of the anti-inflammatory M2 phenotype. 作者更正：纳曲本通过激活 TRPM7 介导的抗炎 M2 表型的发展促进肿瘤生长。

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-02-28 DOI: 10.1038/s41698-025-00836-6

Viviane Nascimento Da Conceicao, Yuyang Sun, Manigandan Venkatesan, Jorge De La Chapa, Karthik Ramachandran, Rahul S Jasrotia, Victor Drel, Xiufang Chai, Bibhuti B Mishra, Muniswamy Madesh, Brij B Singh

引用次数: 0

Ligand-receptor interactions combined with histopathology for improved prognostic modeling in HPV-negative head and neck squamous cell carcinoma. 配体-受体相互作用与组织病理学相结合，改善 HPV 阴性头颈部鳞状细胞癌的预后模型。

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-02-28 DOI: 10.1038/s41698-025-00844-6

Bohai Feng, Di Zhao, Zheng Zhang, Ru Jia, Patrick J Schuler, Jochen Hess

{"title":"Ligand-receptor interactions combined with histopathology for improved prognostic modeling in HPV-negative head and neck squamous cell carcinoma.","authors":"Bohai Feng, Di Zhao, Zheng Zhang, Ru Jia, Patrick J Schuler, Jochen Hess","doi":"10.1038/s41698-025-00844-6","DOIUrl":"10.1038/s41698-025-00844-6","url":null,"abstract":"Head and neck squamous cell carcinoma (HNSC) is a prevalent malignancy, with HPV-negative tumors exhibiting aggressive behavior and poor prognosis. Understanding the intricate interactions within the tumor microenvironment (TME) is crucial for improving prognostic models and identifying therapeutic targets. Using BulkSignalR, we identified ligand-receptor interactions in HPV-negative TCGA-HNSC cohort (n = 395). A prognostic model incorporating 14 ligand-receptor pairs was developed using random forest survival analysis and LASSO-penalized Cox regression based on overall survival and progression-free interval of HPV-negative tumors from TCGA-HNSC. Multi-omics analysis revealed distinct molecular features between risk groups, including differences in extracellular matrix remodeling, angiogenesis, immune infiltration, and APOBEC enzyme activity. Deep learning-based tissue morphology analysis on HE-stained whole slide images further improved risk stratification, with region selection via Silicon enhancing accuracy. The integration of routine histopathology with deep learning and multi-omics data offers a clinically accessible tool for precise risk stratification, facilitating personalized treatment strategies in HPV-negative HNSC.","PeriodicalId":19433,"journal":{"name":"NPJ Precision Oncology","volume":"9 1","pages":"57"},"PeriodicalIF":6.8,"publicationDate":"2025-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11871237/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143531647","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Author Correction: A targetable OSGIN1-AMPK-SLC2A3 axis controls the vulnerability of ovarian cancer to ferroptosis.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-02-28 DOI: 10.1038/s41698-025-00839-3

Mengqi Deng, Fan Tang, Xiangyu Chang, Yanqin Zhang, Penglin Liu, Xuechao Ji, Yubo Zhang, Ruiye Yang, Junyi Jiang, Junqi He, Jinwei Miao

引用次数: 0

Integration of multiple machine learning approaches develops a gene mutation-based classifier for accurate immunotherapy outcomes.

IF 6.8 1区医学

NPJ Precision Oncology Pub Date : 2025-02-27 DOI: 10.1038/s41698-025-00842-8

Run Shi, Jing Sun, Zhaokai Zhou, Meiqi Shi, Xin Wang, Zhaojia Gao, Tianyu Zhao, Minglun Li, Yongqian Shu

{"title":"Integration of multiple machine learning approaches develops a gene mutation-based classifier for accurate immunotherapy outcomes.","authors":"Run Shi, Jing Sun, Zhaokai Zhou, Meiqi Shi, Xin Wang, Zhaojia Gao, Tianyu Zhao, Minglun Li, Yongqian Shu","doi":"10.1038/s41698-025-00842-8","DOIUrl":"10.1038/s41698-025-00842-8","url":null,"abstract":"In addition to traditional biomarkers like PD-(L)1 expression and tumor mutation burden (TMB), more reliable methods for predicting immune checkpoint blockade (ICB) response in cancer patients are urgently needed. This study utilized multiple machine learning approaches on nonsynonymous mutations to identify key mutations that are most significantly correlated to ICB response. We proposed a classifier, Gene mutation-based Predictive Signature (GPS), to categorize patients based on their predicted response and clinical outcomes post-ICB therapy. GPS outperformed conventional predictors when validated in independent cohorts. Multi-omics analysis and multiplex immunohistochemistry (mIHC) revealed insights into tumor immunogenicity, immune responses, and the tumor microenvironment (TME) in lung adenocarcinoma (LUAD) across different GPS groups. Finally, we validated distinct responses of different GPS samples to ICB in an ex-vivo tumor organoid-PBMC co-culture model. Overall, our findings highlight a simple, robust classifier for accurate ICB response prediction, which could reduce costs, shorten testing times, and facilitate clinical implementation.","PeriodicalId":19433,"journal":{"name":"NPJ Precision Oncology","volume":"9 1","pages":"54"},"PeriodicalIF":6.8,"publicationDate":"2025-02-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11865301/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143516267","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0