Tumor Functional Heterogeneity Unraveled by scRNA-seq Technologies
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McGranahan, 2017, Clonal heterogeneity and tumor evolution: past, present, and the future, Cell, 168, 613, 10.1016/j.cell.2017.01.018
Almendro, 2014, Inference of tumor evolution during chemotherapy by computational modeling and in situ analysis of genetic and phenotypic cellular diversity, Cell Rep., 6, 514, 10.1016/j.celrep.2013.12.041
Magee, 2012, Cancer stem cells: impact, heterogeneity, and uncertainty, Cancer Cell, 21, 283, 10.1016/j.ccr.2012.03.003
Arozarena, 2019, Phenotype plasticity as enabler of melanoma progression and therapy resistance, Nat. Rev. Cancer, 19, 377, 10.1038/s41568-019-0154-4
Junttila, 2013, Influence of tumour micro-environment heterogeneity on therapeutic response, Nature, 501, 346, 10.1038/nature12626
The Tabula Muris Consortium, 2018, Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris, Nature, 562, 367, 10.1038/s41586-018-0590-4
Zheng, 2017, Massively parallel digital transcriptional profiling of single cells, Nat. Commun., 8, 14049, 10.1038/ncomms14049
Tang, 2009, mRNA-seq whole-transcriptome analysis of a single cell, Nat. Methods, 6, 377, 10.1038/nmeth.1315
Xue, 2013, Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing, Nature, 500, 593, 10.1038/nature12364
Grindberg, 2013, RNA-sequencing from single nuclei, Proc. Natl Acad. Sci. U. S. A., 110, 19802, 10.1073/pnas.1319700110
Islam, 2014, Quantitative single-cell RNA-seq with unique molecular identifiers, Nat. Methods, 11, 163, 10.1038/nmeth.2772
Islam, 2011, Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq, Genome Res, 21, 1160, 10.1101/gr.110882.110
Hashimshony, 2012, CEL-seq: single-cell RNA-seq by multiplexed linear amplification, Cell Rep, 2, 666, 10.1016/j.celrep.2012.08.003
Macosko, 2015, Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets, Cell, 161, 1202, 10.1016/j.cell.2015.05.002
Klein, 2015, Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells, Cell, 161, 1187, 10.1016/j.cell.2015.04.044
Cao, 2017, Comprehensive single-cell transcriptional profiling of a multicellular organism, Science, 357, 661, 10.1126/science.aam8940
Rosenberg, 2018, Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding, Science, 360, 176, 10.1126/science.aam8999
Stuart, 2019, Integrative single-cell analysis, Nat. Rev. Genet., 20, 257, 10.1038/s41576-019-0093-7
Hou, 2016, Single-cell triple omics sequencing reveals genetic, epigenetic, and transcriptomic heterogeneity in hepatocellular carcinomas, Cell Res., 26, 304, 10.1038/cr.2016.23
Tung, 2017, Batch effects and the effective design of single-cell gene expression studies, Sci. Rep., 7, 39921, 10.1038/srep39921
Stegle, 2015, Computational and analytical challenges in single-cell transcriptomics, Nat. Rev. Genet., 16, 133, 10.1038/nrg3833
Roerink, 2018, Intra-tumour diversification in colorectal cancer at the single-cell level, Nature, 556, 457, 10.1038/s41586-018-0024-3
Puram, 2017, Single-cell transcriptomic analysis of primary and metastatic tumor ecosystems in head and neck cancer, Cell, 171, 1611, 10.1016/j.cell.2017.10.044
Patel, 2014, Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma, Science, 344, 1396, 10.1126/science.1254257
Prasetyanti, 2017, Intra-tumor heterogeneity from a cancer stem cell perspective, Mol. Cancer, 16, 41, 10.1186/s12943-017-0600-4
Winterhoff, 2017, Single cell sequencing reveals heterogeneity within ovarian cancer epithelium and cancer associated stromal cells, Gynecol. Oncol., 144, 598, 10.1016/j.ygyno.2017.01.015
Tirosh, 2016, Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq, Science, 352, 189, 10.1126/science.aad0501
Tirosh, 2016, Single-cell RNA-seq supports a developmental hierarchy in human oligodendroglioma, Nature, 539, 309, 10.1038/nature20123
Liu, 2019, Cancer-associated fibroblasts build and secure the tumor microenvironment, Front. Cell Dev. Biol., 7, 60, 10.3389/fcell.2019.00060
Cortez, 2014, Functional subsets of mesenchymal cell types in the tumor microenvironment, Semin. Cancer Biol., 25, 3, 10.1016/j.semcancer.2013.12.010
Anderberg, 2009, On the origin of cancer-associated fibroblasts, Cell Cycle, 8, 1461, 10.4161/cc.8.10.8557
Anjanappa, 2017, Individualized breast cancer characterization through single-cell analysis of tumor and adjacent normal cells, Cancer Res, 77, 2759, 10.1158/0008-5472.CAN-16-3308
Bartoschek, 2018, Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing, Nat. Commun., 9, 5150, 10.1038/s41467-018-07582-3
Bian, 2018, Single-cell multiomics sequencing and analyses of human colorectal cancer, Science, 362, 1060, 10.1126/science.aao3791
Chen, 2017, Elements of cancer immunity and the cancer–immune set point, Nature, 541, 321, 10.1038/nature21349
Yu, 2018, Present and future of cancer immunotherapy: a tumor microenvironmental perspective, Oncol. Lett., 16, 4105
Valdes-Mora, 2018, Single-cell transcriptomics in cancer immunobiology: the future of precision oncology, Front. Immunol., 9, 2582, 10.3389/fimmu.2018.02582
Guo, 2018, Global characterization of T cells in non-small-cell lung cancer by single-cell sequencing, Nat. Med., 24, 978, 10.1038/s41591-018-0045-3
Ruffell, 2010, Lymphocytes in cancer development: polarization towards pro-tumor immunity, Cytokine Growth Factor Rev, 21, 3, 10.1016/j.cytogfr.2009.11.002
Zheng, 2017, Landscape of infiltrating T cells in liver cancer revealed by single-cell sequencing, Cell, 169, 1342, 10.1016/j.cell.2017.05.035
Zhang, 2019, Landscape and dynamics of single immune cells in hepatocellular carcinoma, Cell, 179, 829, 10.1016/j.cell.2019.10.003
van den Bos, 2018, Single-cell sequencing to quantify genomic integrity in cancer, Int. J. Biochem. Cell Biol., 94, 146, 10.1016/j.biocel.2017.09.016
Zhao, 2019, Molecular detection of epithelial–mesenchymal transition markers in circulating tumor cells from pancreatic cancer patients: potential role in clinical practice, World J. Gastroenterol., 25, 138, 10.3748/wjg.v25.i1.138
Ren, 2018, Understanding tumor ecosystems by single-cell sequencing: promises and limitations, Genome Biol., 19, 211, 10.1186/s13059-018-1593-z
Zhu, 2018, Progress and challenges of sequencing and analyzing circulating tumor cells, Cell Biol. Toxicol., 34, 405, 10.1007/s10565-017-9418-5
Ting, 2014, Single-cell RNA sequencing identifies extracellular matrix gene expression by pancreatic circulating tumor cells, Cell Rep., 8, 1905, 10.1016/j.celrep.2014.08.029
Miyamoto, 2015, RNA-seq of single prostate CTCs implicates noncanonical Wnt signaling in antiandrogen resistance, Science, 349, 1351, 10.1126/science.aab0917
Aceto, 2014, Circulating tumor cell clusters are oligoclonal precursors of breast cancer metastasis, Cell, 158, 1110, 10.1016/j.cell.2014.07.013
Grün, 2015, Single-cell messenger RNA sequencing reveals rare intestinal cell types, Nature, 525, 251, 10.1038/nature14966
Baslan, 2017, Unravelling biology and shifting paradigms in cancer with single-cell sequencing, Nat. Rev. Cancer, 17, 557, 10.1038/nrc.2017.58
Alles, 2017, Cell fixation and preservation for droplet-based single-cell transcriptomics, BMC Biol, 15, 44, 10.1186/s12915-017-0383-5
Guillaumet-Adkins, 2017, Single-cell transcriptome conservation in cryopreserved cells and tissues, Genome Biol, 18, 45, 10.1186/s13059-017-1171-9