Ghisoni E, et al. Immunotherapy for ovarian cancer: towards a tailored immunophenotype-based approach. Nat Rev Clin Oncol. 2024;21:801–17. https://doi.org/10.1038/s41571-024-00937-4.
Guo H, et al. Single-cell methylome landscapes of mouse embryonic stem cells and early embryos analyzed using reduced representation bisulfite sequencing. Genome Res. 2013;23:2126–35. https://doi.org/10.1101/gr.161679.113.
Article PubMed PubMed Central CAS Google Scholar
Tang F, et al. mRNA-Seq whole-transcriptome analysis of a single cell. Nat Methods. 2009;6:377–82. https://doi.org/10.1038/nmeth.1315.
Article PubMed CAS Google Scholar
Giesen C, et al. Highly multiplexed imaging of tumor tissues with subcellular resolution by mass cytometry. Nat Methods. 2014;11:417–22. https://doi.org/10.1038/nmeth.2869.
Article PubMed CAS Google Scholar
Bandura DR, et al. Mass cytometry: technique for real time single cell multitarget immunoassay based on inductively coupled plasma time-of-flight mass spectrometry. Anal Chem. 2009;81:6813–22. https://doi.org/10.1021/ac901049w.
Article PubMed CAS Google Scholar
Bassez A, et al. A single-cell map of intratumoral changes during anti-PD1 treatment of patients with breast cancer. Nat Med. 2021;27:820–32. https://doi.org/10.1038/s41591-021-01323-8.
Article PubMed CAS Google Scholar
Klughammer J, et al. A multi-modal single-cell and Spatial expression map of metastatic breast cancer biopsies across clinicopathological features. Nat Med. 2024;30:3236–49. https://doi.org/10.1038/s41591-024-03215-z.
Article PubMed PubMed Central CAS Google Scholar
Navin N, et al. Tumour evolution inferred by single-cell sequencing. Nature. 2011;472:90–4. https://doi.org/10.1038/nature09807.
Article PubMed PubMed Central CAS Google Scholar
Wang R, et al. Evolution of immune and stromal cell States and ecotypes during gastric adenocarcinoma progression. Cancer Cell. 2023;41:1407–e14261409. https://doi.org/10.1016/j.ccell.2023.06.005.
Article PubMed PubMed Central CAS Google Scholar
Ma L, et al. Tumor cell biodiversity drives microenvironmental reprogramming in liver cancer. Cancer Cell. 2019;36:418–e430416. https://doi.org/10.1016/j.ccell.2019.08.007.
Article PubMed PubMed Central CAS Google Scholar
Liu Y, et al. Immune phenotypic linkage between colorectal cancer and liver metastasis. Cancer Cell. 2022;40:424–e437425. https://doi.org/10.1016/j.ccell.2022.02.013.
Article PubMed CAS Google Scholar
Gohil SH, Iorgulescu JB, Braun DA, Keskin DB, Livak KJ. Applying high-dimensional single-cell technologies to the analysis of cancer immunotherapy. Nat Rev Clin Oncol. 2021;18:244–56. https://doi.org/10.1038/s41571-020-00449-x.
Hawley JE, et al. Anti-PD-1 immunotherapy with androgen deprivation therapy induces robust immune infiltration in metastatic castration-sensitive prostate cancer. Cancer Cell. 2023;41:1972-1988.e1975. https://doi.org/10.1016/j.ccell.2023.10.006.
Article PubMed PubMed Central CAS Google Scholar
Chen Y, et al. Spatiotemporal single-cell analysis decodes cellular dynamics underlying different responses to immunotherapy in colorectal cancer. Cancer Cell. 2024;42:1268–e12851267. https://doi.org/10.1016/j.ccell.2024.06.009.
Article PubMed CAS Google Scholar
Greten TF, et al. Biomarkers for immunotherapy of hepatocellular carcinoma. Nat Rev Clin Oncol. 2023;20:780–98. https://doi.org/10.1038/s41571-023-00816-4.
Article PubMed CAS Google Scholar
Krieg C, et al. High-dimensional single-cell analysis predicts response to anti-PD-1 immunotherapy. Nat Med. 2018;24:144–53. https://doi.org/10.1038/nm.4466.
Article PubMed CAS Google Scholar
Bose S, et al. Scalable microfluidics for single-cell RNA printing and sequencing. Genome Biol. 2015;16:120. https://doi.org/10.1186/s13059-015-0684-3.
Article PubMed PubMed Central CAS Google Scholar
Kamme F, et al. Single-cell microarray analysis in hippocampus CA1: demonstration and validation of cellular heterogeneity. J Neurosci. 2003;23:3607–15. https://doi.org/10.1523/jneurosci.23-09-03607.2003.
Article PubMed PubMed Central CAS Google Scholar
Treutlein B, et al. Reconstructing lineage hierarchies of the distal lung epithelium using single-cell RNA-seq. Nature. 2014;509:371–5. https://doi.org/10.1038/nature13173.
Article PubMed PubMed Central CAS Google Scholar
Islam S, et al. Quantitative single-cell RNA-seq with unique molecular identifiers. Nat Methods. 2014;11:163–6. https://doi.org/10.1038/nmeth.2772.
Article PubMed CAS Google Scholar
Plasschaert LW, et al. A single-cell atlas of the airway epithelium reveals the CFTR-rich pulmonary ionocyte. Nature. 2018;560:377–81. https://doi.org/10.1038/s41586-018-0394-6.
Article PubMed PubMed Central CAS Google Scholar
Villani AC, et al. Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors. Science. 2017;356. https://doi.org/10.1126/science.aah4573.
Johansson G, et al. Ultrasensitive DNA immune repertoire sequencing using unique molecular identifiers. Clin Chem. 2020;66:1228–37. https://doi.org/10.1093/clinchem/hvaa159.
Biedka S, et al. One-pot method for Preparing DNA, RNA, and protein for multiomics analysis. Commun Biol. 2024;7:324. https://doi.org/10.1038/s42003-024-05993-1.
Article PubMed PubMed Central CAS Google Scholar
Macosko EZ, et al. Highly parallel Genome-wide expression profiling of individual cells using nanoliter droplets. Cell. 2015;161:1202–14. https://doi.org/10.1016/j.cell.2015.05.002.
Article PubMed PubMed Central CAS Google Scholar
Zheng GX, et al. Massively parallel digital transcriptional profiling of single cells. Nat Commun. 2017;8:14049. https://doi.org/10.1038/ncomms14049.
Article PubMed PubMed Central CAS Google Scholar
Saelens W, Cannoodt R, Todorov H, Saeys Y. A comparison of single-cell trajectory inference methods. Nat Biotechnol. 2019;37:547–54. https://doi.org/10.1038/s41587-019-0071-9.
Article PubMed CAS Google Scholar
Luecken MD, Theis FJ. Current best practices in single-cell RNA-seq analysis: a tutorial. Mol Syst Biol. 2019;15:e8746. https://doi.org/10.15252/msb.20188746.
Article PubMed PubMed Central Google Scholar
Feng DC, et al. The implications of single-cell RNA-seq analysis in prostate cancer: unraveling tumor heterogeneity, therapeutic implications and pathways towards personalized therapy. Mil Med Res. 2024;11:21.
Comments (0)