Integrated single-cell and spatial transcriptomic analyses unravel the heterogeneity of the prostate tumor microenvironment
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Evan Z. Macosko | P. Kharchenko | D. Scadden | Chin-Lee Wu | Evan Murray | Fei Chen | K. Salari | Y. Kfoury | Alexander O. Subtelny | Dimitar V Zlatev | Shu-Lin Wu | Ninib Baryawno | P. Saylor | D. Dahl | D. Sykes | Hirak Sarkar | S. Mei | B. M. Verhoeven | Taghreed Hirz | D. Zlatev | Matthew W. Wszolek | Shulin Wu
[1] Xiaojian Wu,et al. Cancer-associated fibroblasts impact the clinical outcome and treatment response in colorectal cancer via immune system modulation: a comprehensive genome-wide analysis , 2021, Molecular Medicine.
[2] Dong-Hoon Kim,et al. Cancer-associated fibroblasts are associated with poor prognosis in solid type of lung adenocarcinoma in a machine learning analysis , 2021, Scientific Reports.
[3] N. Yosef,et al. Hotspot identifies informative gene modules across modalities of single-cell genomics. , 2021, Cell systems.
[4] S. Signoretti,et al. A Subset of Localized Prostate Cancer Displays an Immunogenic Phenotype Associated with Losses of Key Tumor Suppressor Genes , 2021, Clinical Cancer Research.
[5] Evan Z. Macosko,et al. Highly sensitive spatial transcriptomics at near-cellular resolution with Slide-seqV2 , 2020, Nature Biotechnology.
[6] Wei Xue,et al. Single-cell analysis supports a luminal-neuroendocrine transdifferentiation in human prostate cancer , 2020, Communications biology.
[7] L. Gil,et al. Single-cell profiling reveals the trajectories of natural killer cell differentiation in bone marrow and a stress signature induced by acute myeloid leukemia , 2020, Cellular & Molecular Immunology.
[8] M. Cooperberg,et al. Single-cell analysis of human primary prostate cancer reveals the heterogeneity of tumor-associated epithelial cell states , 2020, bioRxiv.
[9] F. Mechta-Grigoriou,et al. Fibroblast heterogeneity in tumor micro-environment: Role in immunosuppression and new therapies. , 2020, Seminars in immunology.
[10] Z. Werb,et al. Concepts of extracellular matrix remodelling in tumour progression and metastasis , 2020, Nature Communications.
[11] M. Qurashi,et al. The Role of Sinusoidal Endothelial Cells in the Axis of Inflammation and Cancer Within the Liver , 2020, Frontiers in Physiology.
[12] H. F. Carvalho,et al. Prostate immunology: A challenging puzzle. , 2020, Journal of reproductive immunology.
[13] Zhaowu Ma,et al. Dendritic cell biology and its role in tumor immunotherapy , 2020, Journal of Hematology & Oncology.
[14] G. Thalmann,et al. The Role of Cancer-Associated Fibroblasts in Prostate Cancer Tumorigenesis , 2020, Cancers.
[15] D. Lambrechts,et al. A pan-cancer blueprint of the heterogeneous tumor microenvironment revealed by single-cell profiling , 2020, Cell Research.
[16] Simran K. Sandhu,et al. Urethral luminal epithelia are castration‐insensitive cells of the proximal prostate , 2020, The Prostate.
[17] M. Loda,et al. A single-cell atlas of the mouse and human prostate reveals heterogeneity and conservation of epithelial progenitors , 2020, bioRxiv.
[18] Rafael A. Irizarry,et al. Robust decomposition of cell type mixtures in spatial transcriptomics , 2020, Nature Biotechnology.
[19] D. Pe’er,et al. Regenerative potential of prostate luminal cells revealed by single-cell analysis , 2020, Science.
[20] P. Kharchenko,et al. Human prostate cancer bone metastases have an actionable immunosuppressive microenvironment , 2020, bioRxiv.
[21] H. Wajant,et al. Tumor necrosis factor receptor family costimulation increases regulatory T‐cell activation and function via NF‐κB , 2020, European journal of immunology.
[22] S. A. van de Pavert,et al. Deciphering the Crosstalk Between Myeloid-Derived Suppressor Cells and Regulatory T Cells in Pancreatic Ductal Adenocarcinoma , 2020, Frontiers in Immunology.
[23] Yuan Wang,et al. Single-Cell Map of Diverse Immune Phenotypes in the Metastatic Brain Tumor Microenvironment of Non Small Cell Lung Cancer , 2019, bioRxiv.
[24] P. Sharma,et al. Differences in Tumor Microenvironment Dictate T Helper Lineage Polarization and Response to Immune Checkpoint Therapy , 2019, Cell.
[25] T. Lassmann,et al. Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows , 2019, Genome Biology.
[26] M. Salmi,et al. Fenestral diaphragms and PLVAP associations in liver sinusoidal endothelial cells are developmentally regulated , 2019, Scientific Reports.
[27] Fabian J Theis,et al. Generalizing RNA velocity to transient cell states through dynamical modeling , 2019, Nature Biotechnology.
[28] Kieran R. Campbell,et al. Dissociation of solid tumor tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses , 2019, Genome Biology.
[29] Xianwen Ren,et al. Landscape and Dynamics of Single Immune Cells in Hepatocellular Carcinoma , 2019, Cell.
[30] J. Verbsky,et al. Heterogeneity of human bone marrow and blood natural killer cells defined by single-cell transcriptome , 2019, Nature Communications.
[31] Mengjie Wu,et al. COL12A1, a novel potential prognostic factor and therapeutic target in gastric cancer , 2019, Molecular medicine reports.
[32] K. Kessenbrock,et al. Defining the emergence of myeloid-derived suppressor cells in breast cancer using single-cell transcriptomics , 2019, Science Immunology.
[33] Wanhai Xu,et al. EGR1 Regulates Angiogenic and Osteoclastogenic Factors in Prostate Cancer and Promotes Metastasis , 2019, Oncogene.
[34] Chika Yokota,et al. Spatiotemporal structure of cell fate decisions in murine neural crest , 2019, Science.
[35] Samuel Demharter,et al. Joint analysis of heterogeneous single-cell RNA-seq dataset collections , 2019, Nature Methods.
[36] Allon M Klein,et al. Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data. , 2019, Cell systems.
[37] D. Siemens,et al. The Tumor Immune Contexture of Prostate Cancer , 2019, Front. Immunol..
[38] Evan Z. Macosko,et al. Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution , 2019, Science.
[39] Brian Ruffell,et al. Macrophages as regulators of tumour immunity and immunotherapy , 2019, Nature Reviews Immunology.
[40] Aimin Jiang,et al. Dendritic Cells and CD8 T Cell Immunity in Tumor Microenvironment , 2018, Front. Immunol..
[41] Paul J. Hoover,et al. Defining T Cell States Associated with Response to Checkpoint Immunotherapy in Melanoma , 2018, Cell.
[42] Michael J. T. Stubbington,et al. Single-cell reconstruction of the early maternal–fetal interface in humans , 2018, Nature.
[43] Eric Vivier,et al. High-Dimensional Single-Cell Analysis Identifies Organ-Specific Signatures and Conserved NK Cell Subsets in Humans and Mice , 2018, Immunity.
[44] Gary D Bader,et al. Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations , 2018, Nature Communications.
[45] R. Weinberg,et al. New insights into the mechanisms of epithelial–mesenchymal transition and implications for cancer , 2018, Nature Reviews Molecular Cell Biology.
[46] Wei Liu,et al. CancerSEA: a cancer single-cell state atlas , 2018, Nucleic Acids Res..
[47] Venkat S. Malladi,et al. A Cellular Anatomy of the Normal Adult Human Prostate and Prostatic Urethra , 2018, bioRxiv.
[48] M. Schilham,et al. Human Bone Marrow-Resident Natural Killer Cells Have a Unique Transcriptional Profile and Resemble Resident Memory CD8+ T Cells , 2018, Front. Immunol..
[49] X. Liu,et al. Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response , 2018, Nature Medicine.
[50] Aviv Regev,et al. A revised airway epithelial hierarchy includes CFTR-expressing ionocytes , 2018, Nature.
[51] Ambrose J. Carr,et al. Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment , 2018, Cell.
[52] Erik Sundström,et al. RNA velocity of single cells , 2018, Nature.
[53] P. Carmeliet,et al. Phenotype molding of stromal cells in the lung tumor microenvironment , 2018, Nature Medicine.
[54] Boxi Kang,et al. Global characterization of T cells in non-small-cell lung cancer by single-cell sequencing , 2018, Nature Medicine.
[55] Samuel E. Zimmerman,et al. Stem cell factor is selectively secreted by arterial endothelial cells in bone marrow , 2018, Nature Communications.
[56] Raghu Kalluri,et al. A peek into cancer-associated fibroblasts: origins, functions and translational impact , 2018, Disease Models & Mechanisms.
[57] F. Watt,et al. Spatial and Single-Cell Transcriptional Profiling Identifies Functionally Distinct Human Dermal Fibroblast Subpopulations , 2018, The Journal of investigative dermatology.
[58] Shawn M. Gillespie,et al. Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer , 2017, Cell.
[59] G. Parmigiani,et al. Stromal and epithelial transcriptional map of initiation progression and metastatic potential of human prostate cancer , 2017, Nature Communications.
[60] Julie A Hong,et al. ITGA1 is a pre-malignant biomarker that promotes therapy resistance and metastatic potential in pancreatic cancer , 2017, Scientific Reports.
[61] Huaiping Zhu,et al. A novel role for myeloid cell‐specific neuropilin 1 in mitigating sepsis , 2017, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
[62] J. Sims-Mourtada,et al. The Multifaceted Roles of B Cells in Solid Tumors: Emerging Treatment Opportunities , 2017, Targeted Oncology.
[63] H. Gerhardt,et al. Pericytes or Mesenchymal Stem Cells: Is That the Question? , 2017, Cell stem cell.
[64] C. Benoist,et al. T Regulatory Cells Support Plasma Cell Populations in the Bone Marrow. , 2017, Cell reports.
[65] Mariella G. Filbin,et al. Single-cell RNA-seq supports a developmental hierarchy in human oligodendroglioma , 2016, Nature.
[66] R. Kalluri. The biology and function of fibroblasts in cancer , 2016, Nature Reviews Cancer.
[67] Zhi-Qiang Zhu,et al. Stromal Myofibroblasts Are Associated with Poor Prognosis in Solid Cancers: A Meta-Analysis of Published Studies , 2016, PloS one.
[68] J. Pollard,et al. The Multifaceted Role of Perivascular Macrophages in Tumors. , 2016, Cancer cell.
[69] K. E. Visser,et al. Neutrophils in cancer: neutral no more , 2016, Nature Reviews Cancer.
[70] S. Granjeaud,et al. Inherent and Tumor-Driven Immune Tolerance in the Prostate Microenvironment Impairs Natural Killer Cell Antitumor Activity. , 2016, Cancer research.
[71] Charles H. Yoon,et al. Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq , 2016, Science.
[72] J. Lindberg,et al. Gene regulatory mechanisms underpinning prostate cancer susceptibility , 2016, Nature Genetics.
[73] S. Rafii,et al. Angiocrine functions of organ-specific endothelial cells , 2016, Nature.
[74] Steven J. M. Jones,et al. The Molecular Taxonomy of Primary Prostate Cancer , 2015, Cell.
[75] Sridhar Ramaswamy,et al. RNA-Seq of single prostate CTCs implicates noncanonical Wnt signaling in antiandrogen resistance , 2015, Science.
[76] Wenxue Hu,et al. Alternatively activated macrophages are associated with metastasis and poor prognosis in prostate adenocarcinoma. , 2015, Oncology letters.
[77] A. Orekhov,et al. Myeloid dendritic cells: Development, functions, and role in atherosclerotic inflammation. , 2015, Immunobiology.
[78] T. Rőszer,et al. Understanding the Mysterious M2 Macrophage through Activation Markers and Effector Mechanisms , 2015, Mediators of inflammation.
[79] Pornpimol Charoentong,et al. Characterization of the immunophenotypes and antigenomes of colorectal cancers reveals distinct tumor escape mechanisms and novel targets for immunotherapy , 2015, Genome Biology.
[80] H. Atreya,et al. Insulin-Like Growth Factor System in Cancer: Novel Targeted Therapies , 2015, BioMed research international.
[81] D. Vestweber,et al. Integrin β1 controls VE-cadherin localization and blood vessel stability , 2015, Nature Communications.
[82] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[83] Kewei Ma,et al. Increased circulating myeloid-derived suppressor cells correlate with cancer stages, interleukin-8 and -6 in prostate cancer. , 2014, International journal of clinical and experimental medicine.
[84] P. Chambon,et al. Luminal cells are favored as the cell of origin for prostate cancer. , 2014, Cell reports.
[85] L. Sengeløv,et al. Correlation between frequencies of blood monocytic myeloid-derived suppressor cells, regulatory T cells and negative prognostic markers in patients with castration-resistant metastatic prostate cancer , 2014, Cancer Immunology, Immunotherapy.
[86] Shawn M. Gillespie,et al. Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma , 2014, Science.
[87] E. Giannoni,et al. The Role of M1 and M2 Macrophages in Prostate Cancer in relation to Extracapsular Tumor Extension and Biochemical Recurrence after Radical Prostatectomy , 2014, BioMed research international.
[88] M. Feuerer,et al. Monocytes and Macrophages in Cancer: Development and Functions , 2013, Cancer Microenvironment.
[89] S. Aiba,et al. Crosstalk between regulatory T cells (Tregs) and myeloid derived suppressor cells (MDSCs) during melanoma growth , 2012, Oncoimmunology.
[90] H. Ersoy,et al. Prognostic significance of neuroendocrine differentiation in prostate adenocarcinoma. , 2011, Clinical genitourinary cancer.
[91] C. Betsholtz,et al. Pericytes: developmental, physiological, and pathological perspectives, problems, and promises. , 2011, Developmental cell.
[92] R. Dana,et al. Flt-1 regulates vascular endothelial cell migration via a protein tyrosine kinase-7-dependent pathway. , 2011, Blood.
[93] M. Caligiuri,et al. Innate or Adaptive Immunity? The Example of Natural Killer Cells , 2011, Science.
[94] C. Sander,et al. Integrative genomic profiling of human prostate cancer. , 2010, Cancer cell.
[95] Davis J. McCarthy,et al. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..
[96] Xia Li,et al. KLF6 Induces Apoptosis in Prostate Cancer Cells through Up-regulation of ATF3* , 2008, Journal of Biological Chemistry.
[97] A. Costello,et al. Circulating endothelial cells as biomarkers of prostate cancer , 2008, Nature Clinical Practice Urology.
[98] R. Braren,et al. Cell-autonomous requirement for β1 integrin in endothelial cell adhesion, migration and survival during angiogenesis in mice , 2008, Development.
[99] J. Forrester,et al. LYVE-1-positive macrophages are present in normal murine eyes. , 2007, Investigative ophthalmology & visual science.
[100] T. Suda,et al. Angiogenic Role of LYVE-1–Positive Macrophages in Adipose Tissue , 2007, Circulation research.
[101] C. Betsholtz,et al. Pericyte‐specific expression of Rgs5: implications for PDGF and EDG receptor signaling during vascular maturation , 2003, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
[102] M. Caligiuri,et al. The biology of human natural killer-cell subsets. , 2001, Trends in immunology.
[103] Mario Roederer,et al. Characterization of circulating T cells specific for tumor-associated antigens in melanoma patients , 1999, Nature Medicine.
[104] K. Wake,et al. Expression of P-selectin on hepatic endothelia and platelets promoting neutrophil removal by liver macrophages. , 1998, Blood.
[105] T. Yamada,et al. Chromosome aberrations induced by tritiated water or 60Co gamma-rays at early pronuclear stage in mouse eggs. , 1986, Mutation research.
[106] I. Witz,et al. The Tumor Microenvironment: Methods and Protocols , 2023, Methods in Molecular Biology.
[107] M. Mohsenzadegan,et al. A Review of Preclinical Experiments Toward Targeting M2 Macrophages in Prostate Cancer. , 2019, Current drug targets.
[108] L. Nonn,et al. Single-cell RNA-Seq analysis identifies a putative epithelial stem cell population in human primary prostate cells in monolayer and organoid culture conditions. , 2019, American journal of clinical and experimental urology.
[109] P. Fasching,et al. Tumour-infiltrating lymphocytes and prognosis in different subtypes of breast cancer: a pooled analysis of 3771 patients treated with neoadjuvant therapy. , 2018, The Lancet. Oncology.
[110] Fei Xing,et al. Cancer associated fibroblasts (CAFs) in tumor microenvironment. , 2010, Frontiers in bioscience.
[111] S. Coca,et al. Prognostic significance of tumor infiltrating natural killer cells subset CD57 in patients with squamous cell lung cancer. , 2002, Lung cancer.
[112] J. Lynch. Treatment of advanced prostate cancer. , 1993, The Journal of family practice.