4.8 Article

Single-cell RNA sequencing reveals the effects of chemotherapy on human pancreatic adenocarcinoma and its tumor microenvironment

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Oncology

Cancer statistics, 2022

Rebecca L. Siegel et al.

Summary: Each year, the American Cancer Society compiles data on cancer occurrence and outcomes in the United States. The latest data shows that breast and prostate cancer progress has stagnated, while lung cancer has shown improvements in survival rates. Lung cancer incidence for advanced disease has declined while localized-stage rates have increased, resulting in higher survival rates. Mortality patterns align with incidence trends, with lung cancer deaths declining rapidly, breast cancer deaths slowing, and prostate cancer deaths stabilizing.

CA-A CANCER JOURNAL FOR CLINICIANS (2022)

Article Oncology

Immune phenotypic linkage between colorectal cancer and liver metastasis

Yedan Liu et al.

Summary: The tumor microenvironment (TME) is influenced by cancer cells and host tissues, which play a role in shaping the immune composition within TME. This study identified different immune cell types associated with malignancy and niche, and also identified potential pro-metastasis factors.

CANCER CELL (2022)

Review Gastroenterology & Hepatology

Pancreatic Cancer: Pathogenesis, Screening, Diagnosis, and Treatment

Laura D. Wood et al.

Summary: This review discusses the pathogenesis, early detection methods, and treatment considerations of pancreatic ductal adenocarcinoma (PDAC). Recent advances in understanding PDAC have led to significant improvements in detection and treatment, but coordinated efforts are needed to maximize clinical impact for patients and overall survival.

GASTROENTEROLOGY (2022)

Article Genetics & Heredity

Single-nucleus and spatial transcriptome profiling of pancreatic cancer identifies multicellular dynamics associated with neoadjuvant treatment

William L. Hwang et al.

Summary: This study provides a high-resolution molecular landscape of pancreatic ductal adenocarcinoma (PDAC) using single-nucleus RNA sequencing and whole-transcriptome digital spatial profiling. It identifies recurrent expression programs in malignant cells and fibroblasts, including a newly identified neural-like progenitor malignant cell program associated with poor prognosis. The study also reveals three multicellular communities with distinct contributions from malignant, fibroblast and immune subtypes. This refined molecular and cellular classification can guide clinical trials and therapeutic targeting for specific cellular phenotypes and multicellular interactions.

NATURE GENETICS (2022)

Article Genetics & Heredity

Spatially restricted drivers and transitional cell populations cooperate with the microenvironment in untreated and chemo-resistant pancreatic cancer

Daniel Cui Zhou et al.

Summary: This multi-omic analysis of pancreatic cancer identified spatially resolved, heterogeneous cell populations and revealed treatment-related changes in communication between tumor and stromal cells. The study provides a deeper understanding of the substructure of pancreatic ductal adenocarcinoma and may contribute to improved therapy for patients with this disease.

NATURE GENETICS (2022)

Article Oncology

Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer

Joseph M. Chan et al.

Summary: The study reveals a greater tumor diversity in SCLC compared to lung adenocarcinoma, with a PLCG2-high SCLC phenotype showing stem-like, pro-metastatic features and predicting worse overall survival. Furthermore, SCLC demonstrates greater immune sequestration and less immune infiltration than lung adenocarcinoma.

CANCER CELL (2021)

Article Oncology

Single-cell analyses reveal key immune cell subsets associated with response to PD-L1 blockade in triple-negative breast cancer

Yuanyuan Zhang et al.

Summary: The study indicates that high levels of baseline CXCL13(+) T cells are associated with effective responses to combination therapy in triple-negative breast cancer patients. These cells increase following combination therapy but decrease after monotherapy, highlighting their importance in predicting treatment outcomes.

CANCER CELL (2021)

Article Biochemistry & Molecular Biology

Spatially confined sub-tumor microenvironments in pancreatic cancer

Barbara T. Grunwald et al.

Summary: Through large-scale integration of histology-guided regional multiOMICs with clinical data and patient-derived preclinical models, we identified distinct subTMEs in the human pancreatic tumor microenvironment (TME) that are linked to tumor immunity, subtypes, differentiation, and treatment response. Reactive subTMEs rich in coordinated fibroblast communities were immune hot, while matrix-rich deserted subTMEs harbored fewer activated fibroblasts but showed chemoprotective features. These subTMEs originated in fibroblast differentiation trajectories and produced patient-specific heterogeneity tightly linked to malignant biology.
Article Biochemistry & Molecular Biology

Microenvironment drives cell state, plasticity, and drug response in pancreatic cancer

Srivatsan Raghavan et al.

Summary: Prognostically relevant RNA expression states exist in pancreatic ductal adenocarcinoma (PDAC), with strong culture-specific biases in cancer cell transcriptional state representation and non-genetic modulation of cell state strongly influencing drug responses. This study provides a framework for aligning cell states across in vivo and ex vivo settings, identifying drivers of transcriptional plasticity, and manipulating cell state to target associated vulnerabilities.
Article Biochemistry & Molecular Biology

A pan-cancer single-cell transcriptional atlas of tumor infiltrating myeloid cells

Sijin Cheng et al.

Summary: This study conducted a pan-cancer analysis of single myeloid cells from 210 patients across 15 human cancer types, revealing distinct features of TIMs in different cancer types. For example, mast cells in nasopharyngeal cancer were associated with better prognosis, and pro-angiogenic TAMs showed diverse markers across different cancer types. The composition of TIMs appeared to be linked with certain features of somatic mutations and gene expressions.
Article Immunology

An Eight-Gene Hypoxia Signature Predicts Survival in Pancreatic Cancer and Is Associated With an Immunosuppressed Tumor Microenvironment

Raefa Abou Khouzam et al.

Summary: An eight-gene hypoxia signature identified in this study showed significant association with overall survival in pancreatic ductal adenocarcinoma (PDA), indicating its potential prognostic value. Tumors with high hypoxia were found to have less immune cell infiltration and lower expression of cytokines and inflammatory markers, suggesting a potential role of the signature in identifying an immune cold, hypoxic tumor microenvironment. The combination of the hypoxia signature with an immune metric revealed worse survival outcomes in patients with high hypoxia and low immune reactivity, highlighting the possible utility of this approach in refining survival estimates.

FRONTIERS IN IMMUNOLOGY (2021)

Article Medicine, General & Internal

Estimated Projection of US Cancer Incidence and Death to 2040

Lola Rahib et al.

Summary: This cross-sectional study projected cancer incidences and deaths in the United States up to 2040. The findings indicate significant changes in the most common cancers by 2040, with breast cancer projected to become the most common cancer and lung cancer remaining the leading cause of cancer-related death.

JAMA NETWORK OPEN (2021)

Article Oncology

The CD155/TIGIT axis promotes and maintains immune evasion in neoantigen-expressing pancreatic cancer

William Freed-Pastor et al.

Summary: The CD155/TIGIT axis can be utilized for immune evasion in chronic viral infections and cancers like pancreatic adenocarcinoma. Studies have shown that a significant portion of PDAC patients have predicted high-affinity MHC class I-restricted neoepitopes, and modulation of the CD155/TIGIT axis can promote immune evasion in PDAC. In preclinical models, a combination immunotherapy targeting TIGIT/PD-1 plus CD40 agonism has shown promising anti-tumor responses.

CANCER CELL (2021)

Article Oncology

Elucidation of Tumor-Stromal Heterogeneity and the Ligand-Receptor Interactome by Single-Cell Transcriptomics in Real-world Pancreatic Cancer Biopsies

Jaewon J. Lee et al.

Summary: This study uses single-cell RNA sequencing to analyze the heterogeneity of pancreatic ductal adenocarcinoma, identifying different components in the tumor microenvironment and predicting multiple potential immunotherapy targets.

CLINICAL CANCER RESEARCH (2021)

Review Cell Biology

The biological underpinnings of therapeutic resistance in pancreatic cancer

Gregory L. Beatty et al.

Summary: Pancreatic ductal adenocarcinoma (PDAC) is a major cause of cancer-related mortality in the United States, with a low survival rate of 10% over 5 years. The disease demonstrates remarkable adaptability and resistance to therapeutic intervention, contributing to its poor prognosis. Recent advances in understanding the biological underpinnings of PDAC have revealed potential vulnerabilities that can be targeted for treatment.

GENES & DEVELOPMENT (2021)

Article Cell Biology

Single-cell analysis of pancreatic ductal adenocarcinoma identifies a novel fibroblast subtype associated with poor prognosis but better immunotherapy response

Yu Wang et al.

Summary: The study investigated the heterogeneity among PDAC patients in terms of CAFs, ductal cancer cells, and immune cells, revealing differences between dense-type and loose-type PDAC. A novel subtype of CAFs, meCAFs, was discovered in loose-type PDAC, playing a critical role in disease progression and response to immunotherapy. This finding highlights the importance of considering intertumoral heterogeneity in PDAC treatment strategies.

CELL DISCOVERY (2021)

Review Oncology

CAFs Interacting With TAMs in Tumor Microenvironment to Enhance Tumorigenesis and Immune Evasion

Gurcan Gunaydin

Summary: CAFs and TAMs are crucial players in the tumor microenvironment, playing key roles in tumor growth and progression. They have intricate interactions with each other and with tumor cells, impacting tumor progression and immune evasion. Understanding these interactions may lead to the development of novel therapeutic targets for cancer.

FRONTIERS IN ONCOLOGY (2021)

Article Genetics & Heredity

Transcription phenotypes of pancreatic cancer are driven by genomic events during tumor evolution

Michelle Chan-Seng-Yue et al.

NATURE GENETICS (2020)

Article Biochemistry & Molecular Biology

Single-Cell Analyses Inform Mechanisms of Myeloid-Targeted Therapies in Colon Cancer

Lei Zhang et al.

Review Oncology

The tumour microenvironment in pancreatic cancer - clinical challenges and opportunities

Won Jin Ho et al.

NATURE REVIEWS CLINICAL ONCOLOGY (2020)

Review Oncology

Challenges and Opportunities for Pancreatic Cancer Immunotherapy

Adham S. Bear et al.

CANCER CELL (2020)

Review Medicine, General & Internal

Molecular and Metabolic Subtypes Correspondence for Pancreatic Ductal Adenocarcinoma Classification

Pilar Espiau-Romera et al.

JOURNAL OF CLINICAL MEDICINE (2020)

Review Biochemistry & Molecular Biology

Beyond just a tight fortress: contribution of stroma to epithelial-mesenchymal transition in pancreatic cancer

Ashenafi Bulle et al.

SIGNAL TRANSDUCTION AND TARGETED THERAPY (2020)

Review Gastroenterology & Hepatology

Molecular subtypes of pancreatic cancer

Eric A. Collisson et al.

NATURE REVIEWS GASTROENTEROLOGY & HEPATOLOGY (2019)

Article Biochemistry & Molecular Biology

Comprehensive Integration of Single-Cell Data

Tim Stuart et al.

Article Biotechnology & Applied Microbiology

Dimensionality reduction for visualizing single-cell data using UMAP

Etienne Becht et al.

NATURE BIOTECHNOLOGY (2019)

Article Multidisciplinary Sciences

Epithelial to mesenchymal plasticity and differential response to therapies in pancreatic ductal adenocarcinoma

Rebecca L. Porter et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

Article Medicine, Research & Experimental

Discovery of specialized NK cell populations infiltrating human melanoma metastases

Lucas Ferrari de Andrade et al.

JCI INSIGHT (2019)

Article Oncology

The Immune Revolution: A Case for Priming, Not Checkpoint

Robert H. Vonderheide

CANCER CELL (2018)

Article Biochemistry & Molecular Biology

Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment

Elham Azizi et al.

Article Cell Biology

EMT Subtype Influences Epithelial Plasticity and Mode of Cell Migration

Nicole M. Aiello et al.

DEVELOPMENTAL CELL (2018)

Article Urology & Nephrology

Single-Cell Transcriptomics of a Human Kidney Allograft Biopsy Specimen Defines a Diverse Inflammatory Response

Haojia Wu et al.

JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY (2018)

Article Biotechnology & Applied Microbiology

Integrating single-cell transcriptomic data across different conditions, technologies, and species

Andrew Butler et al.

NATURE BIOTECHNOLOGY (2018)

Article Gastroenterology & Hepatology

Stratification of Pancreatic Ductal Adenocarcinomas Based on Tumor and Microenvironment Features

Francesco Puleo et al.

GASTROENTEROLOGY (2018)

Article Immunology

Distinct populations of inflammatory fibroblasts and myofibroblasts in pancreatic cancer

Daniel Ohlund et al.

JOURNAL OF EXPERIMENTAL MEDICINE (2017)

Article Multidisciplinary Sciences

Massively parallel digital transcriptional profiling of single cells

Grace X. Y. Zheng et al.

NATURE COMMUNICATIONS (2017)

Article Oncology

Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma

Andrew J. Aguirre et al.

CANCER CELL (2017)

Article Biochemistry & Molecular Biology

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data

Antonio Colaprico et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Multidisciplinary Sciences

Genomic analyses identify molecular subtypes of pancreatic cancer

Peter Bailey et al.

NATURE (2016)

Review Oncology

The Contribution of Angiogenesis to the Process of Metastasis

Diane R. Bielenberg et al.

CANCER JOURNAL (2015)

Review Immunology

From monocytes to M1/M2 macrophages: phenotypical vs. functional differentiation

Paola Italiani et al.

FRONTIERS IN IMMUNOLOGY (2014)

Article Physics, Condensed Matter

A smart local moving algorithm for large-scale modularity-based community detection

Ludo Waltman et al.

EUROPEAN PHYSICAL JOURNAL B (2013)

Article Multidisciplinary Sciences

Targeting CXCL12 from FAP-expressing carcinomaassociated fibroblasts synergizes with anti-PD-L1 immunotherapy in pancreatic cancer

Christine Feig et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Biochemistry & Molecular Biology

EMT and Dissemination Precede Pancreatic Tumor Formation

Andrew D. Rhim et al.

Review Biochemistry & Molecular Biology

Hallmarks of Cancer: The Next Generation

Douglas Hanahan et al.

Article Medicine, General & Internal

Pancreatic cancer

Audrey Vincent et al.

LANCET (2011)

Article Biochemistry & Molecular Biology

Subtypes of pancreatic ductal adenocarcinoma and their differing responses to therapy

Eric A. Collisson et al.

NATURE MEDICINE (2011)

Article Computer Science, Interdisciplinary Applications

Regularization Paths for Generalized Linear Models via Coordinate Descent

Jerome Friedman et al.

JOURNAL OF STATISTICAL SOFTWARE (2010)

Article Multidisciplinary Sciences

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

A Subramanian et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Gastroenterology & Hepatology

A high peripheral microvessel density count correlates with a poor prognosis in pancreatic cancer

K Takagi et al.

JOURNAL OF GASTROENTEROLOGY (2005)

Article Immunology

M-1/M-2 macrophages and the Th1/Th2 paradigm

CD Mills et al.

JOURNAL OF IMMUNOLOGY (2000)