Promotion of cholangiocarcinoma growth by diverse cancer-associated fibroblast subpopulations

Affo, 2017, The role of cancer-associated fibroblasts and fibrosis in liver cancer, Annu. Rev. Pathol., 12, 153, 10.1146/annurev-pathol-052016-100322 Algul, 2007, Pancreas-specific RelA/p65 truncation increases susceptibility of acini to inflammation-associated cell death following cerulein pancreatitis, J. Clin. Invest., 117, 1490, 10.1172/JCI29882 Aparicio, 2020, A random matrix theory approach to Denoise single-cell data, Patterns (N Y), 1, 100035, 10.1016/j.patter.2020.100035 Banales, 2020, Cholangiocarcinoma 2020: the next horizon in mechanisms and management, Nat. Rev. Gastroenterol. Hepatol., 17, 557, 10.1038/s41575-020-0310-z Bankhead, 2017, QuPath: open source software for digital pathology image analysis, Sci. Rep., 7, 16878, 10.1038/s41598-017-17204-5 Barbazan, 2019, Cancer associated fibroblasts: is the force the path to the dark side?, Curr. Opin. Cell Biol., 56, 71, 10.1016/j.ceb.2018.09.002 Barbie, 2009, Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1, Nature, 462, 108, 10.1038/nature08460 Biffi, 2020, Diversity and biology of cancer-associated fibroblasts, Physiol. Rev., 101, 147, 10.1152/physrev.00048.2019 Blondel, 2008, Fast unfolding of communities in large networks, J. Stat. Mech. Theor. Exp, 6, 10008, 10.1088/1742-5468/2008/10/P10008 Buchtler, 2018, Cellular origin and functional relevance of collagen I production in the kidney, J. Am. Soc. Nephrol., 29, 1859, 10.1681/ASN.2018020138 Catenacci, 2015, Randomized phase ib/II study of gemcitabine plus placebo or vismodegib, a hedgehog pathway inhibitor, in patients with metastatic pancreatic cancer, J. Clin. Oncol., 33, 4284, 10.1200/JCO.2015.62.8719 Caviglia, 2018, MicroRNA-21 and Dicer are dispensable for hepatic stellate cell activation and the development of liver fibrosis, Hepatology, 67, 2414, 10.1002/hep.29627 Chen, 2019, Turning foes to friends: targeting cancer-associated fibroblasts, Nat. Rev. Drug Discov., 18, 99, 10.1038/s41573-018-0004-1 Chowdhury, 2019, Programmable bacteria induce durable tumor regression and systemic antitumor immunity, Nat. Med., 25, 1057, 10.1038/s41591-019-0498-z Clements, 2020, Risk factors for intrahepatic and extrahepatic cholangiocarcinoma: a systematic review and meta-analysis, J. Hepatol., 72, 95, 10.1016/j.jhep.2019.09.007 Comoglio, 2018, Known and novel roles of the MET oncogene in cancer: a coherent approach to targeted therapy, Nat. Rev. Cancer, 18, 341, 10.1038/s41568-018-0002-y Costa, 2018, Fibroblast heterogeneity and immunosuppressive environment in human breast cancer, Cancer Cell, 33, 463, 10.1016/j.ccell.2018.01.011 Cyphert, 2015, Size matters: molecular weight specificity of hyaluronan effects in cell biology, Int. J. Cell Biol., 2015, 563818, 10.1155/2015/563818 Egeblad, 2010, Dynamic interplay between the collagen scaffold and tumor evolution, Curr. Opin. Cell Biol., 22, 697, 10.1016/j.ceb.2010.08.015 Elyada, 2019, Cross-species single-cell analysis of pancreatic ductal adenocarcinoma reveals antigen-presenting cancer-associated fibroblasts, Cancer Discov., 9, 1102, 10.1158/2159-8290.CD-19-0094 Erez, 2010, Cancer-associated fibroblasts are activated in incipient neoplasia to orchestrate tumor-promoting inflammation in an NF-kappaB-dependent manner, Cancer Cell, 17, 135, 10.1016/j.ccr.2009.12.041 Fan, 2012, Cholangiocarcinomas can originate from hepatocytes in mice, J. Clin. Invest., 122, 2911, 10.1172/JCI63212 Franzén, 2019, PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data, Database, 2019, 10.1093/database/baz046 Friedman, 2008, Hepatic stellate cells: protean, multifunctional, and enigmatic cells of the liver, Physiol. Rev., 88, 125, 10.1152/physrev.00013.2007 Friedman, 2020, Cancer-associated fibroblast compositions change with breast cancer progression linking the ratio of S100A4+ and PDPN+ CAFs to clinical outcome, Nat. Cancer, 1, 692, 10.1038/s43018-020-0082-y Hanahan, 2012, Accessories to the crime: functions of cells recruited to the tumor microenvironment, Cancer Cell, 21, 309, 10.1016/j.ccr.2012.02.022 Hosein, 2019, Cellular heterogeneity during mouse pancreatic ductal adenocarcinoma progression at single-cell resolution, JCI Insight, 5, e129212, 10.1172/jci.insight.129212 Huh, 2004, Hepatocyte growth factor/c-met signaling pathway is required for efficient liver regeneration and repair, Proc. Natl. Acad. Sci. U S A, 101, 4477, 10.1073/pnas.0306068101 Ilicic, 2016, Classification of low quality cells from single-cell RNA-seq data, Genome Biol., 17, 29, 10.1186/s13059-016-0888-1 Kalluri, 2016, The biology and function of fibroblasts in cancer, Nat. Rev. Cancer, 16, 582, 10.1038/nrc.2016.73 Kononen, 1998, Tissue microarrays for high-throughput molecular profiling of tumor specimens, Nat. Med., 4, 844, 10.1038/nm0798-844 Krempen, 1999, Far upstream regulatory elements enhance position-independent and uterus-specific expression of the murine alpha1(I) collagen promoter in transgenic mice, Gene Expr., 8, 151 Levental, 2009, Matrix crosslinking forces tumor progression by enhancing integrin signaling, Cell, 139, 891, 10.1016/j.cell.2009.10.027 Liotta, 1986, Tumor invasion and metastases—role of the extracellular matrix: Rhoads Memorial Award lecture, Cancer Res., 46, 1 Lun, 2016, Pooling across cells to normalize single-cell RNA sequencing data with many zero counts, Genome Biol., 17, 75, 10.1186/s13059-016-0947-7 Ma, 2019, Tumor cell biodiversity drives microenvironmental reprogramming in liver cancer, Cancer Cell, 36, 418, 10.1016/j.ccell.2019.08.007 Marti, 2015, YAP promotes proliferation, chemoresistance, and angiogenesis in human cholangiocarcinoma through TEAD transcription factors, Hepatology, 62, 1497, 10.1002/hep.27992 Matsumoto, 2009, Conditional inactivation of Has2 reveals a crucial role for hyaluronan in skeletal growth, patterning, chondrocyte maturation and joint formation in the developing limb, Development, 136, 2825, 10.1242/dev.038505 McCarthy, 2018, Hyaluronan, cancer-associated fibroblasts and the tumor microenvironment in malignant progression, Front. Cell Dev. Biol., 6, 48, 10.3389/fcell.2018.00048 McInnes, 2018, UMAP: uniform manifold approximation and projection for dimension reduction, arXiv Mederacke, 2013, Fate tracing reveals hepatic stellate cells as dominant contributors to liver fibrosis independent of its aetiology, Nat. Commun., 4, 2823, 10.1038/ncomms3823 Mederacke, 2015, High-yield and high-purity isolation of hepatic stellate cells from normal and fibrotic mouse livers, Nat. Protoc., 10, 305, 10.1038/nprot.2015.017 Mertens, 2013, Therapeutic effects of deleting cancer-associated fibroblasts in cholangiocarcinoma, Cancer Res., 73, 897, 10.1158/0008-5472.CAN-12-2130 Michalopoulos, 1997, Liver regeneration, Science, 276, 60, 10.1126/science.276.5309.60 Mu, 2016, Epithelial transforming growth factor-beta signaling does not contribute to liver fibrosis but protects mice from cholangiocarcinoma, Gastroenterology, 150, 720, 10.1053/j.gastro.2015.11.039 Northey, 2017, Tissue force programs cell fate and tumor aggression, Cancer Discov., 7, 1224, 10.1158/2159-8290.CD-16-0733 Ohlund, 2017, Distinct populations of inflammatory fibroblasts and myofibroblasts in pancreatic cancer, J. Exp. Med., 214, 579, 10.1084/jem.20162024 Ozdemir, 2014, Depletion of carcinoma-associated fibroblasts and fibrosis induces immunosuppression and accelerates pancreas cancer with reduced survival, Cancer Cell, 25, 719, 10.1016/j.ccr.2014.04.005 Phaneuf, 2004, Generation of a mouse expressing a conditional knockout of the hepatocyte growth factor gene: demonstration of impaired liver regeneration, DNA Cell Biol., 23, 592, 10.1089/dna.2004.23.592 Pradere, 2013, Hepatic macrophages but not dendritic cells contribute to liver fibrosis by promoting the survival of activated hepatic stellate cells in mice, Hepatology, 58, 1461, 10.1002/hep.26429 Provenzano, 2012, Enzymatic targeting of the stroma ablates physical barriers to treatment of pancreatic ductal adenocarcinoma, Cancer Cell, 21, 418, 10.1016/j.ccr.2012.01.007 Ramanathan, 2019, Phase IB/II randomized study of FOLFIRINOX plus pegylated recombinant human hyaluronidase versus FOLFIRINOX alone in patients with metastatic pancreatic adenocarcinoma: swog S1313, J. Clin. Oncol., 37, 1062, 10.1200/JCO.18.01295 Raudvere, 2019, g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update), Nucleic Acids Res., 47, W191, 10.1093/nar/gkz369 Reich, 2006, GenePattern 2.0, Nat. Genet., 38, 500, 10.1038/ng0506-500 Reimand, 2019, Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap, Nat. Protoc., 14, 482, 10.1038/s41596-018-0103-9 Rhim, 2014, Stromal elements act to restrain, rather than support, pancreatic ductal adenocarcinoma, Cancer Cell, 25, 735, 10.1016/j.ccr.2014.04.021 Riener, 2010, Cell adhesion molecules P-cadherin and CD24 are markers for carcinoma and dysplasia in the biliary tract, Hum. Pathol., 41, 1558, 10.1016/j.humpath.2009.12.016 Rizvi, 2018, YAP-associated chromosomal instability and cholangiocarcinoma in mice, Oncotarget, 9, 5892, 10.18632/oncotarget.23638 Rizvi, 2018, Cholangiocarcinoma - evolving concepts and therapeutic strategies, Nat. Rev. Clin. Oncol., 15, 95, 10.1038/nrclinonc.2017.157 Rousseeuw, 1987, Silhouettes: a graphical aid to the interpretation and validation of cluster analysis, J. Comput. Appl. Math., 20, 53, 10.1016/0377-0427(87)90125-7 Sahai, 2020, A framework for advancing our understanding of cancer-associated fibroblasts, Nat. Rev. Cancer, 20, 174, 10.1038/s41568-019-0238-1 Seehawer, 2018, Necroptosis microenvironment directs lineage commitment in liver cancer, Nature, 562, 69, 10.1038/s41586-018-0519-y Senoo, 2017, The stellate cell system (vitamin A-storing cell system), Anat. Sci. Int., 92, 387, 10.1007/s12565-017-0395-9 Sia, 2013, Integrative molecular analysis of intrahepatic cholangiocarcinoma reveals 2 classes that have different outcomes, Gastroenterology, 144, 829, 10.1053/j.gastro.2013.01.001 Sirica, 2011, The role of cancer-associated myofibroblasts in intrahepatic cholangiocarcinoma, Nat. Rev. Gastroenterol. Hepatol., 9, 44, 10.1038/nrgastro.2011.222 Stuart, 2019, Comprehensive integration of single-cell data, Cell, 177, 1888, 10.1016/j.cell.2019.05.031 Su, 2018, CD10(+)GPR77(+) cancer-associated fibroblasts promote cancer formation and chemoresistance by sustaining cancer stemness, Cell, 172, 841, 10.1016/j.cell.2018.01.009 Tian, 2013, High-molecular-mass hyaluronan mediates the cancer resistance of the naked mole rat, Nature, 499, 346, 10.1038/nature12234 Toole, 2004, Hyaluronan: from extracellular glue to pericellular cue, Nat. Rev. Cancer, 4, 528, 10.1038/nrc1391 Vento-Tormo, 2018, Single-cell reconstruction of the early maternal-fetal interface in humans, Nature, 563, 347, 10.1038/s41586-018-0698-6 Wang, 2018, Notch2 controls hepatocyte-derived cholangiocarcinoma formation in mice, Oncogene, 37, 3229, 10.1038/s41388-018-0188-1 Wang, 2019, Loss of Fbxw7 synergizes with activated Akt signaling to promote c-Myc dependent cholangiocarcinogenesis, J. Hepatol., 71, 742, 10.1016/j.jhep.2019.05.027 Yang, 2019, Hyaluronan synthase 2-mediated hyaluronan production mediates Notch1 activation and liver fibrosis, Sci. Transl. Med., 11, eaat9284, 10.1126/scitranslmed.aat9284 Zhang, 2020, Single cell transcriptomic architecture and intercellular crosstalk of human intrahepatic cholangiocarcinoma, J. Hepatol., 73, 1118, 10.1016/j.jhep.2020.05.039