Novel omics technology driving translational research in precision oncology
Tài liệu tham khảo
Affara, 2014, B cells regulate macrophage phenotype and response to chemotherapy in squamous carcinomas, Cancer Cell, 25, 809, 10.1016/j.ccr.2014.04.026
Agrawal, 2016, Nivolumab dose selection: Challenges, opportunities, and lessons learned for cancer immunotherapy, Journal for Immunotherapy of Cancer, 4, 72, 10.1186/s40425-016-0177-2
Alexander, 2012, Cancer invasion and resistance: Interconnected processes of disease progression and therapy failure, Trends in Molecular Medicine, 18, 13, 10.1016/j.molmed.2011.11.003
Al-Hajj, 2003, Prospective identification of tumorigenic breast cancer cells, Proceedings of the National Academy of Sciences of the United States of America, 100, 3983, 10.1073/pnas.0530291100
Alix-Panabières, 2013, Circulating tumor cells: Liquid biopsy of cancer, Clinical Chemistry, 59, 110, 10.1373/clinchem.2012.194258
Alix-Panabières, 2013, Technologies for detection of circulating tumor cells: Facts and vision, Lab on a Chip, 14, 57, 10.1039/C3LC50644D
Alix-Panabières, 2014, Challenges in circulating tumour cell research. Nature Reviews, Cancer, 14, 623
Alix-Panabières, 2016, Clinical applications of circulating tumor cells and circulating tumor DNA as liquid biopsy, Cancer Discovery, 6, 479, 10.1158/2159-8290.CD-15-1483
Andersson, 2020
Andre, 2006, Molecular classification of breast cancer: Implications for selection of adjuvant chemotherapy, Nature Clinical Practice Oncology, 3, 621, 10.1038/ncponc0636
Asp, 2020, Spatially resolved transcriptomes-next generation tools for tissue exploration, BioEssays: News and Reviews in Molecular, Cellular and Developmental Biology, 42, 10.1002/bies.201900221
Babayan, 2013, Heterogeneity of estrogen receptor expression in circulating tumor cells from metastatic breast cancer patients, PLoS One, 8, 10.1371/journal.pone.0075038
Bagge, 1983, The arrest of circulating tumor cells in the liver microcirculation. A vital fluorescence microscopic, electron microscopic and isotope study in the rat, Journal of Cancer Research and Clinical Oncology, 105, 134, 10.1007/BF00406923
Baghban, 2020, Tumor microenvironment complexity and therapeutic implications at a glance, Cell Communication and Signaling: CCS, 18, 59, 10.1186/s12964-020-0530-4
Bardelli, 2017, Liquid biopsies, what we do not know (Yet), Cancer Cell, 31, 172, 10.1016/j.ccell.2017.01.002
Bauman, 1980, A new method for fluorescence microscopical localization of specific DNA sequences by in situ hybridization of fluorochrome-labelled RNA, Experimental Cell Research, 128, 485, 10.1016/0014-4827(80)90087-7
Berglund, 2018, Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity, Nature Communications, 9, 2419, 10.1038/s41467-018-04724-5
Best, 2017, Swarm intelligence-enhanced detection of non-small-cell lung cancer using tumor-educated platelets, Cancer Cell, 32, 238, 10.1016/j.ccell.2017.07.004
Best, 2015, RNA-seq of tumor-educated platelets enables blood-based pan-cancer, multiclass, and molecular pathway cancer diagnostics, Cancer Cell, 28, 666, 10.1016/j.ccell.2015.09.018
Best, 2018, Tumor-educated platelets as a noninvasive biomarker source for cancer detection and progression monitoring, Cancer Research, 78, 3407, 10.1158/0008-5472.CAN-18-0887
Bettegowda, 2014, Detection of circulating tumor DNA in early- and late-stage human malignancies, Science Translational Medicine, 6, 10.1126/scitranslmed.3007094
Bidard, 2021, Efficacy of circulating tumor cell count–driven vs clinician-driven first-line therapy choice in hormone receptor–positive, ERBB2-negative metastatic breast cancer, JAMA Oncology, 7, 34, 10.1001/jamaoncol.2020.5660
Bonnet, 1997, Human acute myeloid leukemia is organized as a hierarchy that originates from a primitive hematopoietic cell, Nature Medicine, 3, 730, 10.1038/nm0797-730
Boral, 2017, Molecular characterization of breast cancer CTCs associated with brain metastasis, Nature Communications, 8, 196, 10.1038/s41467-017-00196-1
Bruchard, 2013, Chemotherapy-triggered cathepsin B release in myeloid-derived suppressor cells activates the Nlrp3 inflammasome and promotes tumor growth, Nature Medicine, 19, 57, 10.1038/nm.2999
Bullock, 2016, Lessons learned: Dose selection of small molecule-targeted oncology drugs, Clinical Cancer Research: An Official Journal of the American Association for Cancer Research, 22, 2630, 10.1158/1078-0432.CCR-15-2646
Cancer Tomorrow. (n.d.). Retrieved March 22, 2021, from https://gco.iarc.fr/tomorrow/en/dataviz/isotype?years=2025&single_unit=500000&types=0
Cao, 2017, Comprehensive single-cell transcriptional profiling of a multicellular organism, Science, 357, 661, 10.1126/science.aam8940
Cao, 2019, The single-cell transcriptional landscape of mammalian organogenesis, Nature, 566, 496, 10.1038/s41586-019-0969-x
Carter, 2017, Molecular analysis of circulating tumor cells identifies distinct copy-number profiles in patients with chemosensitive and chemorefractory small-cell lung cancer, Nature Medicine, 23, 114, 10.1038/nm.4239
Castro-Giner, 2018, Cancer diagnosis using a liquid biopsy: Challenges and expectations, Diagnostics (Basel, Switzerland), 8
Chakraborty, 2012, The difficulties in cancer treatment, Ecancermedicalscience, 6
Chakravarthi, 2016, Genomic and epigenomic alterations in cancer, The American Journal of Pathology, 186, 1724, 10.1016/j.ajpath.2016.02.023
Chen, 2021, Exosome detection via the ultrafast-isolation system: EXODUS, Nature Methods, 18, 212, 10.1038/s41592-020-01034-x
Cheng, 2020, Identification and analysis of Glioblastoma biomarkers based on single cell sequencing, Frontiers in Bioengineering and Biotechnology, 8, 167, 10.3389/fbioe.2020.00167
Cheung, 2007, Aldehyde dehydrogenase activity in leukemic blasts defines a subgroup of acute myeloid leukemia with adverse prognosis and superior NOD/SCID engrafting potential, Leukemia, 21, 1423, 10.1038/sj.leu.2404721
Cohen, 2018, Detection and localization of surgically resectable cancers with a multi-analyte blood test, Science, 359, 926, 10.1126/science.aar3247
Couturier, 2020, Single-cell RNA-seq reveals that glioblastoma recapitulates a normal neurodevelopmental hierarchy, Nature Communications, 11, 3406, 10.1038/s41467-020-17186-5
Cristofanilli, 2004, Circulating tumor cells, disease progression, and survival in metastatic breast cancer, The New England Journal of Medicine, 351, 781, 10.1056/NEJMoa040766
Crowley, 2013, Liquid biopsy: Monitoring cancer-genetics in the blood, Nature Reviews. Clinical Oncology, 10, 472, 10.1038/nrclinonc.2013.110
D’Avola, 2018, High-density single cell mRNA sequencing to characterize circulating tumor cells in hepatocellular carcinoma, Scientific Reports, 8, 11570, 10.1038/s41598-018-30047-y
Dagogo-Jack, 2018, Tumour heterogeneity and resistance to cancer therapies, Nature Reviews. Clinical Oncology, 15, 81, 10.1038/nrclinonc.2017.166
Dalerba, 2007, Phenotypic characterization of human colorectal cancer stem cells, Proceedings of the National Academy of Sciences of the United States of America, 104, 10158, 10.1073/pnas.0703478104
Dawson, 2013, Analysis of circulating tumor DNA to monitor metastatic breast cancer, The New England Journal of Medicine, 368, 1199, 10.1056/NEJMoa1213261
Der, 2017, Single cell RNA sequencing to dissect the molecular heterogeneity in lupus nephritis, JCI Insight, 2, 10.1172/jci.insight.93009
Desgrosellier, 2010, Integrins in cancer: Biological implications and therapeutic opportunities, Nature Reviews. Cancer, 10, 9, 10.1038/nrc2748
Ding, 2020, Systematic comparison of single-cell and single-nucleus RNA-sequencing methods, Nature Biotechnology, 38, 737, 10.1038/s41587-020-0465-8
Domínguez-Vigil, 2018, The dawn of the liquid biopsy in the fight against cancer, Oncotarget, 9, 2912, 10.18632/oncotarget.23131
Dong, 2020, Liquid biopsy based single-cell transcriptome profiling characterizes heterogeneity of disseminated tumor cells from lung adenocarcinoma, Proteomics, 20, 10.1002/pmic.201900224
Ebos, 2015, Prodding the beast: Assessing the impact of treatment-induced metastasis, Cancer Research, 75, 3427, 10.1158/0008-5472.CAN-15-0308
Efficacy Study of Herceptin to Treat HER2-negative CTC Breast Cancer - Full Text View - ClinicalTrials.Gov. (n.d.). Retrieved March 20, 2021, from https://clinicaltrials.gov/ct2/show/NCT01548677
Egeblad, 2010, Tumors as organs: Complex tissues that interface with the entire organism, Developmental Cell, 18, 884, 10.1016/j.devcel.2010.05.012
Eidelman, 2017, The metabolic phenotype of prostate cancer, Frontiers in Oncology, 7, 131, 10.3389/fonc.2017.00131
Eke, 2012, β₁Integrin/FAK/cortactin signaling is essential for human head and neck cancer resistance to radiotherapy, The Journal of Clinical Investigation, 122, 1529, 10.1172/JCI61350
El Azreq, 2012, Collagen/β1 integrin signaling up-regulates the ABCC1/MRP-1 transporter in an ERK/MAPK-dependent manner, Molecular Biology of the Cell, 23, 3473, 10.1091/mbc.e12-02-0132
El Messaoudi, 2013, Circulating cell free DNA: Preanalytical considerations, Clinica Chimica Acta; International Journal of Clinical Chemistry, 424, 222, 10.1016/j.cca.2013.05.022
Elazezy, 2018, Techniques of using circulating tumor DNA as a liquid biopsy component in cancer management, Computational and Structural Biotechnology Journal, 16, 370, 10.1016/j.csbj.2018.10.002
Eng, 2019, Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH, Nature, 568, 235, 10.1038/s41586-019-1049-y
Fehr, 2011, Circulating nucleosomes in cancer patients with liver metastases undergoing selective internal radiation therapy using Yttrium-90 labelled microspheres, Circulating Nucleic Acids in Plasma and Serum, 91
Follain, 2018, Hemodynamic forces tune the arrest, adhesion, and extravasation of circulating tumor cells, Developmental Cell, 45, 33, 10.1016/j.devcel.2018.02.015
Freireich, 1966, Quantitative comparison of toxicity of anticancer agents in mouse, rat, hamster, dog, monkey, and man, Cancer Chemotherapy Reports, 50, 219
Fürth, 2019
Gao, 2020, Genome-wide profiling of nucleosome position and chromatin accessibility in single cells using scMNase-seq, Nature Protocols, 15, 68, 10.1038/s41596-019-0243-6
García, 2008, Free circulating mRNA in plasma from breast cancer patients and clinical outcome, Cancer Letters, 263, 312, 10.1016/j.canlet.2008.01.008
Garcia-Murillas, 2015, Mutation tracking in circulating tumor DNA predicts relapse in early breast cancer, Science Translational Medicine, 7, 302ra133, 10.1126/scitranslmed.aab0021
Garraway, 2012, Circumventing cancer drug resistance in the era of personalized medicine, Cancer Discovery, 2, 214, 10.1158/2159-8290.CD-12-0012
Gierahn, 2017, Seq-well: Portable, low-cost RNA sequencing of single cells at high throughput, Nature Methods, 14, 395, 10.1038/nmeth.4179
Global Health Estimates: Leading Causes of Death. (n.d.). Retrieved March 12, 2021, from https://www.who.int/data/gho/data/themes/mortality-and-global-health-estimates/ghe-leading-causes-of-death
Goel, 2013, β1 integrins mediate resistance to ionizing radiation in vivo by inhibiting c-Jun amino terminal kinase 1, Journal of Cellular Physiology, 228, 1601, 10.1002/jcp.24323
Grauel, 2020, TGFβ-blockade uncovers stromal plasticity in tumors by revealing the existence of a subset of interferon-licensed fibroblasts, Nature Communications, 11, 6315, 10.1038/s41467-020-19920-5
Gupta, 2018, Single-cell isoform RNA sequencing characterizes isoforms in thousands of cerebellar cells, Nature Biotechnology, 36, 1197, 10.1038/nbt.4259
Gurney, 2002, How to calculate the dose of chemotherapy, British Journal of Cancer, 86, 1297, 10.1038/sj.bjc.6600139
Haas, 2019, Allies or enemies-the multifaceted role of myeloid cells in the tumor microenvironment, Frontiers in Immunology, 10, 2746, 10.3389/fimmu.2019.02746
Haemmerle, 2017, Platelets reduce anoikis and promote metastasis by activating YAP1 signaling, Nature Communications, 8, 310, 10.1038/s41467-017-00411-z
Hagemann-Jensen, 2020, Single-cell RNA counting at allele and isoform resolution using Smart-seq3, Nature Biotechnology, 38, 708, 10.1038/s41587-020-0497-0
Halvaei, 2018, Exosomes in cancer liquid biopsy: A focus on breast cancer, Molecular Therapy--Nucleic Acids, 10, 131, 10.1016/j.omtn.2017.11.014
Han, 2018, Mapping the mouse cell atlas by microwell-seq, Cell, 172, 1091, 10.1016/j.cell.2018.02.001
He, 2020, Integrating spatial gene expression and breast tumour morphology via deep learning, Nature Biomedical Engineering, 4, 827, 10.1038/s41551-020-0578-x
Herbein, 2020, Polyploid giant cancer cells, a hallmark of oncoviruses and a new therapeutic challenge, Frontiers in Oncology, 10, 567116, 10.3389/fonc.2020.567116
Holdenrieder, 2009, Clinical use of circulating nucleosomes, Critical Reviews in Clinical Laboratory Sciences, 46, 1, 10.1080/10408360802485875
Horwich, 1997, Journal of Clinical Oncology: Official Journal of the American Society of Clinical Oncology, 15, 1844, 10.1200/JCO.1997.15.5.1844
Hoshino, 2015, Tumour exosome integrins determine organotropic metastasis, Nature, 527, 329, 10.1038/nature15756
Huang, 2009, Non-genetic heterogeneity of cells in development: More than just noise, Development, 136, 3853, 10.1242/dev.035139
Huang, 2011, β1 integrin mediates an alternative survival pathway in breast cancer cells resistant to lapatinib, Breast Cancer Research: BCR, 13, R84, 10.1186/bcr2936
Huber, 2018, Fluorescence in situ hybridization (FISH): History, limitations and what to expect from micro-scale FISH?, Nanoscale and Microscale Thermophysical Engineering, 1, 15
Hunter, 2020
Ilie, 2014, “Sentinel” circulating tumor cells allow early diagnosis of lung cancer in patients with chronic obstructive pulmonary disease, PLoS One, 9, 10.1371/journal.pone.0111597
Islam, 2011, Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq, Genome Research, 21, 1160, 10.1101/gr.110882.110
Jain, 2010, Phase I oncology studies: Evidence that in the era of targeted therapies patients on lower doses do not fare worse, Clinical Cancer Research: An Official Journal of the American Association for Cancer Research, 16, 1289, 10.1158/1078-0432.CCR-09-2684
Jaiswal, 2012, Microparticle-associated nucleic acids mediate trait dominance in cancer, FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology, 26, 420, 10.1096/fj.11-186817
Janowska-Wieczorek, 2005, Microvesicles derived from activated platelets induce metastasis and angiogenesis in lung cancer, International Journal of Cancer. Journal International Du Cancer, 113, 752, 10.1002/ijc.20657
Ji, 2020, Multimodal analysis of composition and spatial architecture in human squamous cell carcinoma, Cell, 182, 497, 10.1016/j.cell.2020.05.039
Jonasson, 2019, Identification of breast cancer stem cell related genes using functional cellular assays combined with single-cell RNA sequencing in MDA-MB-231 cells, Frontiers in Genetics, 10, 500, 10.3389/fgene.2019.00500
Joosse, 2015, Tumor-educated platelets as liquid biopsy in cancer patients, [Review of Tumor-Educated Platelets as Liquid Biopsy in Cancer Patients]. Cancer Cell, 28, 552
Kanda, 2013, Erlotinib resistance in lung cancer cells mediated by integrin β1/Src/Akt-driven bypass signaling, Cancer Research, 73, 6243, 10.1158/0008-5472.CAN-12-4502
Keller, 2019, Unravelling tumour heterogeneity by single-cell profiling of circulating tumour cells, Nature Reviews. Cancer, 19, 553, 10.1038/s41568-019-0180-2
Kim, 2016, Application of single-cell RNA sequencing in optimizing a combinatorial therapeutic strategy in metastatic renal cell carcinoma, Genome Biology, 17, 80, 10.1186/s13059-016-0945-9
Kim, 2009, Tumor self-seeding by circulating cancer cells, Cell, 139, 1315, 10.1016/j.cell.2009.11.025
Klein, 2015, Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells, Cell, 161, 1187, 10.1016/j.cell.2015.04.044
Kohles, 2012, Prognostic relevance of oncological serum biomarkers in liver cancer patients undergoing transarterial chemoembolization therapy, Tumour Biology: The Journal of the International Society for Oncodevelopmental Biology and Medicine, 33, 33, 10.1007/s13277-011-0237-7
Kolodziejczyk, 2015, The technology and biology of single-cell RNA sequencing, Molecular Cell, 58, 610, 10.1016/j.molcel.2015.04.005
Krug, 2018, Improved EGFR mutation detection using combined exosomal RNA and circulating tumor DNA in NSCLC patient plasma, Annals of Oncology: Official Journal of the European Society for Medical Oncology/ESMO, 29, 700, 10.1093/annonc/mdx765
Kuznetsov, 2012, Identification of luminal breast cancers that establish a tumor-supportive macroenvironment defined by proangiogenic platelets and bone marrow-derived cells, Cancer Discovery, 2, 1150, 10.1158/2159-8290.CD-12-0216
La Manno, 2018, RNA velocity of single cells, Nature, 560, 494, 10.1038/s41586-018-0414-6
Labelle, 2011, Direct signaling between platelets and cancer cells induces an epithelial-mesenchymal-like transition and promotes metastasis, Cancer Cell, 20, 576, 10.1016/j.ccr.2011.09.009
Langer-Safer, 1982, Immunological method for mapping genes on Drosophila polytene chromosomes, Proceedings of the National Academy of Sciences of the United States of America, 79, 4381, 10.1073/pnas.79.14.4381
Lee, 2015, Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues, Nature Protocols, 10, 442, 10.1038/nprot.2014.191
Lee, 2014, Highly multiplexed subcellular RNA sequencing in situ, Science, 343, 1360, 10.1126/science.1250212
Leppert, 2007, The role of molecular markers in the staging of renal cell carcinoma, BJU International, 99, 1208, 10.1111/j.1464-410X.2007.06812.x
Lubeck, 2014, Single-cell in situ RNA profiling by sequential hybridization [Review of Single-cell in situ RNA profiling by sequential hybridization], Nature Methods, 11, 360, 10.1038/nmeth.2892
Luengo, 2017, Targeting metabolism for cancer therapy, Cell Chemical Biology, 24, 1161, 10.1016/j.chembiol.2017.08.028
Macosko, 2015, Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets, Cell, 161, 1202, 10.1016/j.cell.2015.05.002
Mader, 2017, Liquid biopsy: Current status and future perspectives, Oncology Research and Treatment, 40, 404, 10.1159/000478018
Maniatis, 2021, Spatially resolved transcriptomics and its applications in cancer, Current Opinion in Genetics & Development, 66, 70, 10.1016/j.gde.2020.12.002
Manning, 1975, A new method of in situ hybridization, Chromosoma, 53, 107, 10.1007/BF00333039
Maynard, 2020, Therapy-induced evolution of human lung cancer revealed by single-cell RNA sequencing, Cell, 182, 1232, 10.1016/j.cell.2020.07.017
Mehra, 2007, Circulating mitochondrial nucleic acids have prognostic value for survival in patients with advanced prostate cancer, Clinical Cancer Research: An Official Journal of the American Association for Cancer Research, 13, 421, 10.1158/1078-0432.CCR-06-1087
Merritt, 2020, Multiplex digital spatial profiling of proteins and RNA in fixed tissue, Nature Biotechnology, 38, 586, 10.1038/s41587-020-0472-9
Merritt, 2019
Mirzayans, 2018, Roles of polyploid/multinucleated giant cancer cells in metastasis and disease relapse following anticancer treatment, Cancers, 10, 10.3390/cancers10040118
Moncada, 2020, Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas, Nature Biotechnology, 38, 333, 10.1038/s41587-019-0392-8
Moncada, 2019
Mulders, 2004, Specific monoclonal antibody-based immunotherapy by targeting the RCC-associated antigen carbonic anhydrase-IX(G250/MN), Der Urologe. Ausg. A, 43, S146, 10.1007/s00120-004-0609-3
Multiple Myeloma Minimal Residual Disease—Full Text View—ClinicalTrials.Gov. (n.d.). Retrieved March 20, 2021, from https://clinicaltrials.gov/ct2/show/NCT02627261
Nguyen, 2018, Single cell RNA sequencing of rare immune cell populations, Frontiers in Immunology, 9, 1553, 10.3389/fimmu.2018.01553
Nilsson, 2016, Rearranged EML4-ALK fusion transcripts sequester in circulating blood platelets and enable blood-based crizotinib response monitoring in non-small-cell lung cancer, Oncotarget, 7, 1066, 10.18632/oncotarget.6279
O’Brien, 2007, A human colon cancer cell capable of initiating tumour growth in immunodeficient mice, Nature, 445, 106, 10.1038/nature05372
Ovarium Cancer Detection by TEP's and ctDNA. (n.d.). Retrieved March 26, 2021, from https://clinicaltrials.gov/ct2/show/NCT04022863
Pan, 2020, Identification of a novel cancer stem cell subpopulation that promotes progression of human fatal renal cell carcinoma by single-cell RNA-seq analysis, International Journal of Biological Sciences, 16, 3149, 10.7150/ijbs.46645
Pang, 2020, Extracellular vesicles: The next generation of biomarkers for liquid biopsy-based prostate cancer diagnosis, Theranostics, 10, 2309, 10.7150/thno.39486
Park, 2008, Beta1 integrin inhibition dramatically enhances radiotherapy efficacy in human breast cancer xenografts, Cancer Research, 68, 4398, 10.1158/0008-5472.CAN-07-6390
Pashayan, 2020, The challenge of early detection in cancer, Science, 368, 589, 10.1126/science.aaz2078
Patel, 2019, Comparative analysis of exosome isolation methods using culture supernatant for optimum yield, purity and downstream applications, Scientific Reports, 9, 5335, 10.1038/s41598-019-41800-2
Pavlova, 2016, The emerging hallmarks of cancer metabolism, Cell Metabolism, 23, 27, 10.1016/j.cmet.2015.12.006
Phi, 2018, Cancer Stem Cells (CSCs) in drug resistance and their therapeutic implications in cancer treatment, Stem Cells International, 2018, 5416923, 10.1155/2018/5416923
Picelli, 2014, Full-length RNA-seq from single cells using Smart-seq2, Nature Protocols, 9, 171, 10.1038/nprot.2014.006
Piotrowska, 2015, Heterogeneity underlies the emergence of EGFRT790 wild-type clones following treatment of T790M-positive cancers with a third-generation EGFR inhibitor, Cancer Discovery, 5, 713, 10.1158/2159-8290.CD-15-0399
Poikonen, 1999, Leucocyte nadir as a marker for chemotherapy efficacy in node-positive breast cancer treated with adjuvant CMF, British Journal of Cancer, 80, 1763, 10.1038/sj.bjc.6690594
Predina, 2013, Changes in the local tumor microenvironment in recurrent cancers may explain the failure of vaccines after surgery, Proceedings of the National Academy of Sciences of the United States of America, 110, E415
Qiu, 2020, Refining cancer management using integrated liquid biopsy, Theranostics, 10, 2374, 10.7150/thno.40677
Quail, 2013, Microenvironmental regulation of tumor progression and metastasis, Nature Medicine, 19, 1423, 10.1038/nm.3394
Raab, 2011, A pilot study of tumor-derived exosomes as diagnostic and prognostic markers in breast cancer patients receiving neoadjuvant chemotherapy, Journal of Clinical Oncology: Official Journal of the American Society of Clinical Oncology, 29, 10.1200/jco.2011.29.15_suppl.tps248
Rahier, 2017, Circulating nucleosomes as new blood-based biomarkers for detection of colorectal cancer, Clinical Epigenetics, 9, 53, 10.1186/s13148-017-0351-5
Rankin, 1992, A randomised study comparing standard dose carboplatin with chlorambucil and carboplatin in advanced ovarian cancer, British Journal of Cancer, 65, 275, 10.1038/bjc.1992.55
Ricci-Vitiani, 2007, Identification and expansion of human colon-cancer-initiating cells, Nature, 445, 111, 10.1038/nature05384
Rodriques, 2019, Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution, Science, 363, 1463, 10.1126/science.aaw1219
Rosenberg, 2018, Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding, Science, 360, 176, 10.1126/science.aam8999
Rudkin, 1977, High resolution detection of DNA-RNA hybrids in situ by indirect immunofluorescence, Nature, 265, 472, 10.1038/265472a0
Safaei, 2005, Abnormal lysosomal trafficking and enhanced exosomal export of cisplatin in drug-resistant human ovarian carcinoma cells, Molecular Cancer Therapeutics, 4, 1595, 10.1158/1535-7163.MCT-05-0102
Sandfeld-Paulsen, 2016, Exosomal proteins as prognostic biomarkers in non-small cell lung cancer, Molecular Oncology, 10, 1595, 10.1016/j.molonc.2016.10.003
Sautès-Fridman, 2019, Tertiary lymphoid structures in the era of cancer immunotherapy, Nature Reviews. Cancer, 19, 307, 10.1038/s41568-019-0144-6
Scher, 1996, Clinical trials in relapsed prostate cancer: Defining the target, Journal of the National Cancer Institute, 88, 1623, 10.1093/jnci/88.22.1623
Schnitt, 2001, Traditional and newer pathologic factors, Journal of the National Cancer Institute. Monographs, 30, 22, 10.1093/oxfordjournals.jncimonographs.a003456
Schwarzenbach, 2011, Cell-free nucleic acids as biomarkers in cancer patients, Nature Reviews. Cancer, 11, 426, 10.1038/nrc3066
Seguin, 2014, An integrin β₃-KRAS-RalB complex drives tumour stemness and resistance to EGFR inhibition, Nature Cell Biology, 16, 457, 10.1038/ncb2953
Shaheed, 2018, Evaluation of nipple aspirate fluid as a diagnostic tool for early detection of breast cancer, Clinical Proteomics, 15, 3, 10.1186/s12014-017-9179-4
Shalek, 2013, Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells, Nature, 498, 236, 10.1038/nature12172
Shedden, 2003, Expulsion of small molecules in vesicles shed by cancer cells: Association with gene expression and chemosensitivity profiles, Cancer Research, 63, 4331
Siegel, 2020, Cancer statistics, 2020, CA: A Cancer Journal for Clinicians, 70, 7
Singh, 2004, Identification of human brain tumour initiating cells, Nature, 432, 396, 10.1038/nature03128
Siravegna, 2015, Clonal evolution and resistance to EGFR blockade in the blood of colorectal cancer patients, Nature Medicine, 21, 795, 10.1038/nm.3870
Snyder, 2010, Effect of anaesthetic technique and other perioperative factors on cancer recurrence, British Journal of Anaesthesia, 105, 106, 10.1093/bja/aeq164
Snyder, 2016, Cell-free DNA comprises an in vivo nucleosome footprint that informs its tissues-of-origin, Cell, 164, 57, 10.1016/j.cell.2015.11.050
Sophie John (ONS) and John Broggio (PHE), 2019
Spill, 2016, Impact of the physical microenvironment on tumor progression and metastasis, Current Opinion in Biotechnology, 40, 41, 10.1016/j.copbio.2016.02.007
Ståhl, 2016, Visualization and analysis of gene expression in tissue sections by spatial transcriptomics, Science, 353, 78, 10.1126/science.aaf2403
Stickels, 2020
Stoetzer, 2013, Prediction of response to neoadjuvant chemotherapy in breast cancer patients by circulating apoptotic biomarkers nucleosomes, DNAse, cytokeratin-18 fragments and survivin, Cancer Letters, 336, 140, 10.1016/j.canlet.2013.04.013
Strell, 2019, Placing RNA in context and space - methods for spatially resolved transcriptomics, The FEBS Journal, 286, 1468, 10.1111/febs.14435
Strimbu, 2010, What are biomarkers?, Current Opinion in HIV and AIDS, 5, 463, 10.1097/COH.0b013e32833ed177
Sun, 2019, Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin, Genome Research, 29, 418, 10.1101/gr.242719.118
Sung, 2021, Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries, A Cancer Journal for Clinicians., 10.3322/caac.21660
Symmans, 2003, Total RNA yield and microarray gene expression profiles from fine-needle aspiration biopsy and core-needle biopsy samples of breast carcinoma, Cancer, 97, 2960, 10.1002/cncr.11435
Tang, 2009, mRNA-Seq whole-transcriptome analysis of a single cell, Nature Methods, 6, 377, 10.1038/nmeth.1315
Tang, 2019, The single-cell sequencing: New developments and medical applications, Cell & Bioscience, 9, 53, 10.1186/s13578-019-0314-y
Taylor, 2008, MicroRNA signatures of tumor-derived exosomes as diagnostic biomarkers of ovarian cancer, Gynecologic Oncology, 110, 13, 10.1016/j.ygyno.2008.04.033
Tekola-Ayele, 2015, Translational genomics in low- and middle-income countries: Opportunities and challenges, Public Health Genomics, 18, 242, 10.1159/000433518
Thrane, 2018, Spatially resolved transcriptomics enables dissection of genetic heterogeneity in stage III cutaneous malignant melanoma, Cancer Research, 78, 5970, 10.1158/0008-5472.CAN-18-0747
Tie, 2016, Circulating tumor DNA analysis detects minimal residual disease and predicts recurrence in patients with stage II colon cancer, Science Translational Medicine, 8, 10.1126/scitranslmed.aaf6219
Toki, 2019, High-plex predictive marker discovery for melanoma immunotherapy-treated patients using digital spatial profiling, Clinical Cancer Research: An Official Journal of the American Association for Cancer Research, 25, 5503, 10.1158/1078-0432.CCR-19-0104
Tran, 2021
Vargas, 2016, Biomarker development in the precision medicine era: Lung cancer as a case study, Nature Reviews. Cancer, 16, 525, 10.1038/nrc.2016.56
Vicini, 2005, Limitations in the use of serum prostate specific antigen levels to monitor patients after treatment for prostate cancer, The Journal of Urology, 173, 1456, 10.1097/01.ju.0000157323.55611.23
Vickovic, 2019, High-definition spatial transcriptomics for in situ tissue profiling, Nature Methods, 16, 987, 10.1038/s41592-019-0548-y
Villani, 2017, Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors, Science, 356, 10.1126/science.aah4573
Vitak, 2017, Sequencing thousands of single-cell genomes with combinatorial indexing, Nature Methods, 14, 302, 10.1038/nmeth.4154
Wagner, 2020, Diurnal stability of cell-free DNA and cell-free RNA in human plasma samples, Scientific Reports, 10, 16456, 10.1038/s41598-020-73350-3
Wang, 2020, Spatial modeling of prostate cancer metabolic gene expression reveals extensive heterogeneity and selective vulnerabilities, Scientific Reports, 10, 3490, 10.1038/s41598-020-60384-w
Wei, 2014, Exosomal miR-221/222 enhances tamoxifen resistance in recipient ER-positive breast cancer cells, Breast Cancer Research and Treatment, 147, 423, 10.1007/s10549-014-3037-0
Weizman, 2014, Macrophages mediate gemcitabine resistance of pancreatic adenocarcinoma by upregulating cytidine deaminase, Oncogene, 33, 3812, 10.1038/onc.2013.357
Wen, 2018, Boosting the power of single-cell analysis, Nature Biotechnology, 36, 408, 10.1038/nbt.4131
Wunsch, 2016, Nanoscale lateral displacement arrays for the separation of exosomes and colloids down to 20 nm, Nature Nanotechnology, 11, 936, 10.1038/nnano.2016.134
Yang, 2020, Targeting cancer stem cell pathways for cancer therapy, Signal Transduction and Targeted Therapy, 5, 8, 10.1038/s41392-020-0110-5
Yoosuf, 2020, Identification and transfer of spatial transcriptomics signatures for cancer diagnosis, Breast Cancer Research: BCR, 22, 6, 10.1186/s13058-019-1242-9
Yu, 2014, Cancer therapy. Ex vivo culture of circulating breast tumor cells for individualized testing of drug susceptibility, Science, 345, 216, 10.1126/science.1253533
Zhang, 2020, The history and advances in cancer immunotherapy: Understanding the characteristics of tumor-infiltrating immune cells and their therapeutic implications, Cellular & Molecular Immunology, 17, 807, 10.1038/s41423-020-0488-6
Zheng, 2018, Single-cell analysis reveals cancer stem cell heterogeneity in hepatocellular carcinoma, Hepatology, 68, 127, 10.1002/hep.29778
Zheng, 2017, Massively parallel digital transcriptional profiling of single cells, Nature Communications, 8, 14049, 10.1038/ncomms14049
Zhou, 2020, Application of exosomes as liquid biopsy in clinical diagnosis, Signal Transduction and Targeted Therapy, 5, 144, 10.1038/s41392-020-00258-9
Zugazagoitia, 2020, Biomarkers associated with beneficial PD-1 checkpoint blockade in non-small cell lung cancer (NSCLC) identified using high-plex digital spatial profiling, Clinical Cancer Research: An Official Journal of the American Association for Cancer Research, 26, 4360, 10.1158/1078-0432.CCR-20-0175
