Xu K, Wang R, Xie H, Hu L, Wang C, Xu J et al (2021) Single-cell RNA sequencing reveals cell heterogeneity and transcriptome profile of breast cancer lymph node metastasis. Oncogenesis 10(10):66. https://doi.org/10.1038/s41389-021-00355-6

Article  CAS  PubMed  PubMed Central  Google Scholar 

Sharma R (2021) Global, regional, national burden of breast cancer in 185 countries: evidence from GLOBOCAN 2018. Breast Cancer Res Treat 187(2):557–567. https://doi.org/10.1007/s10549-020-06083-6

Article  PubMed  Google Scholar 

Arnold M, Morgan E, Rumgay H, Mafra A, Singh D, Laversanne M et al (2022) Current and future burden of breast cancer: global statistics for 2020 and 2040. The Breast 66:15–23. https://doi.org/10.1016/j.breast.2022.08.010

Article  PubMed  PubMed Central  Google Scholar 

Park M, Kim D, Ko S, Kim A, Mo K, Yoon H (2022) Breast cancer metastasis: mechanisms and therapeutic implications. Int J Mol Sci 23(12):6806. https://doi.org/10.3390/ijms23126806

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hanahan D (2022) Hallmarks of cancer: new dimensions. Cancer Discov 12(1):31–46. https://doi.org/10.1158/2159-8290.CD-21-1059

Article  CAS  PubMed  Google Scholar 

Wang L, Zhang S, Wang X (2021) The metabolic mechanisms of breast cancer metastasis. Front Oncol 7:10. https://doi.org/10.3389/fonc.2020.602416

Article  Google Scholar 

Chen B, Zhang G, Lai J, Xiao W, Li X, Li C et al (2021) Genetic and immune characteristics of sentinel lymph node metastases and multiple lymph node metastases compared to their matched primary breast tumours. EBioMedicine 71:103542. https://doi.org/10.1016/j.ebiom.2021.103542

Article  CAS  PubMed  PubMed Central  Google Scholar 

Liang Y, Zhang H, Song X, Yang Q (2020) Metastatic heterogeneity of breast cancer: molecular mechanism and potential therapeutic targets. Semin Cancer Biol. https://doi.org/10.1016/j.semcancer.2019.08.012

Article  PubMed  Google Scholar 

Lu P, Weaver VM, Werb Z (2012) The extracellular matrix: a dynamic niche in cancer progression. J Cell Biol. https://doi.org/10.1083/jcb.201102147

Article  PubMed  PubMed Central  Google Scholar 

Winkler J, Abisoye-Ogunniyan A, Metcalf KJ, Werb Z (2020) Concepts of extracellular matrix remodelling in tumour progression and metastasis. Nat Commun. https://doi.org/10.1038/s41467-020-18794-x

Article  PubMed  PubMed Central  Google Scholar 

Hu Q, Hong Y, Qi P, Lu G, Mai X, Xu S et al (2021) Atlas of breast cancer infiltrated B-lymphocytes revealed by paired single-cell RNA-sequencing and antigen receptor profiling. Nat Commun 12(1):2186. https://doi.org/10.1038/s41467-021-22300-2

Article  CAS  PubMed  PubMed Central  Google Scholar 

Klemm F, Maas RR, Bowman RL, Kornete M, Soukup K, Nassiri S et al (2020) Interrogation of the microenvironmental landscape in brain tumors reveals Disease-specific alterations of immune cells. Cell 181(7):1643-1660.e17. https://doi.org/10.1016/j.cell.2020.05.007

Article  CAS  PubMed  PubMed Central  Google Scholar 

Biermann J, Melms JC, Amin AD, Wang Y, Caprio LA, Karz A et al (2022) Dissecting the treatment-naive ecosystem of human melanoma brain metastasis. Cell 185(14):2591-2608.e30. https://doi.org/10.1016/j.cell.2022.06.007

Article  CAS  PubMed  PubMed Central  Google Scholar 

Friebel E, Kapolou K, Unger S, Núñez NG, Utz S, Rushing EJ et al (2020) Single-cell mapping of human brain cancer reveals tumor-specific instruction of tissue-Invading leukocytes. Cell 181(7):1626-1642.e20. https://doi.org/10.1016/j.cell.2020.04.055

Article  CAS  PubMed  Google Scholar 

Simeonov KP, Byrns CN, Clark ML, Norgard RJ, Martin B, Stanger BZ et al (2021) Single-cell lineage tracing of metastatic cancer reveals selection of hybrid EMT states. Cancer Cell 39(8):1150-1162.e9. https://doi.org/10.1016/j.ccell.2021.05.005

Article  CAS  PubMed  PubMed Central  Google Scholar 

Pastushenko I, Brisebarre A, Sifrim A, Fioramonti M, Revenco T, Boumahdi S et al (2018) Identification of the tumour transition states occurring during EMT. Nature 556(7702):463–468. https://doi.org/10.1038/s41586-018-0040-3

Article  CAS  PubMed  Google Scholar 

Davis A, Gao R, Navin N (2017) Tumor evolution: Linear, branching, neutral or punctuated? Rev Cancer Biochim Biophys Acta. https://doi.org/10.1016/j.bbcan.2017.01.003

Article  Google Scholar 

Gerstberger S, Jiang Q, Ganesh K (2023) Metastasis. Cell 186(8):1564–1579. https://doi.org/10.1016/j.cell.2023.03.003

Article  CAS  PubMed  PubMed Central  Google Scholar 

Pal B, Chen Y, Vaillant F, Capaldo BD, Joyce R, Song X, Bryant VL, Penington JS, Di Stefano L, Ribera NT, Wilcox S, Mann GB, Papenfuss AT, Lindeman GJ, Smyth GK, Visvader JE (2021) A single-cell RNA expression atlas of normal, preneoplastic and tumorigenic states in the human breast. EMBO J 40:e107333

Article  CAS  PubMed  PubMed Central  Google Scholar 

Wang X, Zhou Y, Wu Z, Xie C, Xu W, Zhou Q, Yang D, Zhu D, Wang MW, Wang L (2024) Single-cell transcriptomics reveals the role of antigen presentation in liver metastatic breast cancer. iScience. https://doi.org/10.1016/j.isci.2024.108896

Article  PubMed  PubMed Central  Google Scholar 

R Core Team. R (2021) A Language and environment for statistical computing. Vienna: R foundation for statistical computing. https://www.R-project.org/

Hao Y, Hao S, Andersen-Nissen E, Mauck WM, Zheng S, Butler A et al (2021) Integrated analysis of multimodal single-cell data. Cell 184(13):3573-3587.e29. https://doi.org/10.1016/j.cell.2021.04.048

Article  CAS  PubMed  PubMed Central  Google Scholar 

Stuart T, Butler A, Hoffman P, Hafemeister C, Papalexi E, Mauck WM et al (2019) Comprehensive integration of single-cell data. Cell 177(7):1888-1902.e21. https://doi.org/10.1016/j.cell.2019.05.031

Article  CAS  PubMed  PubMed Central  Google Scholar 

Tickle T, Tirosh I, Georgescu C, Brown M, Haas B (2019) InferCNV of the trinity CTAT project. Cambridge: Klarman Cell Observatory, Broad Institute of MIT and Harvard. https://github.com/broadinstitute/inferCNV. Accessed 27 Mar 2024

Zhou Y, Zhou B, Pache L, Chang M, Khodabakhshi AH, Tanaseichuk O et al (2019) Metascape provides a biologist-oriented resource for the analysis of systems-level datasets. Nat Commun 10(1):1523. https://doi.org/10.1038/s41467-019-09234-6

Article  CAS  PubMed  PubMed Central  Google Scholar 

Jones RC, Karkanias J, Krasnow MA, Pisco AO, Quake SR et al (2022) The tabula sapiens: a multiple-organ, single-cell transcriptomic atlas of humans. Science. https://doi.org/10.1126/science.abl4896

Article  PubMed  PubMed Central  Google Scholar 

Kuleshov MV, Jones MR, Rouillard AD, Fernandez NF, Duan Q, Wang Z et al (2016) Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Res 44(W1):W90–W97. https://doi.org/10.1093/nar/gkw377

Article  CAS  PubMed  PubMed Central  Google Scholar 

Storey JD (2002) A direct approach to false discovery rates. J R Stat Soc Ser B Stat Methodol 64(3):479–498. https://doi.org/10.1111/1467-9868.00346

Article  Google Scholar 

Tellez-Gabriel M, Ory B, Lamoureux F, Heymann M-F, Heymann D (2016) Tumour heterogeneity: the key advantages of single-cell analysis. Int J Mol Sci 17(12):2142. https://doi.org/10.3390/ijms17122142

Article  CAS