@article{6d7d3fd88558443984a25f8f88c15917,
title = "Single-cell RNA sequencing reveals gene expression signatures of breast cancer-associated endothelial cells",
abstract = "Tumor endothelial cells (TEC) play an indispensible role in tumor growth and metastasis although much of the detailed mechanism still remains elusive. In this study we characterized and compared the global gene expression profiles of TECs and control ECs isolated from human breast cancerous tissues and reduction mammoplasty tissues respectively by single cell RNA sequencing (scRNA-seq). Based on the qualified scRNA-seq libraries that we made, we found that 1302 genes were differentially expressed between these two EC phenotypes. Both principal component analysis (PCA) and heat map-based hierarchical clustering separated the cancerous versus control ECs as two distinctive clusters, and MetaCore disease biomarker analysis indicated that these differentially expressed genes are highly correlated with breast neoplasm diseases. Gene Set Enrichment Analysis software (GSEA) enriched these genes to extracellular matrix (ECM) signal pathways and highlighted 127 ECMassociated genes. External validation verified some of these ECM-associated genes are not only generally overexpressed in various cancer tissues but also specifically overexpressed in colorectal cancer ECs and lymphoma ECs. In conclusion, our data demonstrated that ECM-associated genes play pivotal roles in breast cancer EC biology and some of them could serve as potential TEC biomarkers for various cancers.",
keywords = "Breast cancer, Endothelial cell, Extracellular matrix, Single-cell RNA sequencing",
author = "Zhengda Sun and Wang, {Chih Yang} and Lawson, {Devon A.} and Serena Kwek and Velozo, {Hugo Gonzalez} and Mark Owyong and Lai, {Ming Derg} and Lawrence Fong and Mark Wilson and Hua Su and Zena Werb and Cooke, {Daniel L.}",
note = "Funding Information: Core at the National Cheng Kung University, supported by the National Science Council, Taiwan. This study was supported in part by funds to Z. Werb from the National Cancer Institute (R01 CA057621 and U01 CA199315), D. Cooke from Society for Neurointerventional Surgery Foundation (125254A), H. Su from the National Institutes of Health (R01 NS027713, R01 HL122774 and R21 NS083788), Z. Sun from Department of Radiology and Biomedical Imaging, UCSF (Seed grant 14–29), M-D. Lai from Taiwan Ministry of Science and Technology (103-2325-B006-012), C.-Y.Wang from Taiwan Ministry of Science and Technology (104-2917-I-006-002) and L. Fong from Prostate Cancer Foundation. The authors would like to thank the members in Werb Lab, Fong Lab and Center for Cerebrovascular Research, UCSF for their technical support. Funding Information: Computational analyses and data mining were performed using the system provided by the Bioinformatics Core at the National Cheng Kung University, supported by the National Science Council, Taiwan. This study was supported in part by funds to Z. Werb from the National Cancer Institute (R01 CA057621 and U01 CA199315), D. Cooke from Society for Neurointerventional Surgery Foundation (125254A), H. Su from the National Institutes of Health (R01 NS027713, R01 HL122774 and R21 NS083788), Z. Sun from Department of Radiology and Biomedical Imaging, UCSF (Seed grant 14-29), M-D. Lai from Taiwan Ministry of Science and Technology (103-2325-B006-012), C.-Y. Wang from Taiwan Ministry of Science and Technology (104-2917-I-006-002) and L. Fong from Prostate Cancer Foundation. The authors would like to thank the members in Werb Lab, Fong Lab and Center for Cerebrovascular Research, UCSF for their technical support. Publisher Copyright: {\textcopyright} Sun et al.",
year = "2018",
month = jan,
day = "1",
doi = "10.18632/oncotarget.23760",
language = "English",
volume = "9",
pages = "10945--10961",
journal = "Oncotarget",
issn = "1949-2553",
publisher = "Impact Journals LLC",
number = "13",
}
