TY - JOUR
T1 - Radiogenomic analysis of breast cancer by using B-mode and vascular US and RNA sequencing
AU - Park, Ah Young
AU - Han, Mi Ryung
AU - Park, Kyong Hwa
AU - Kim, Jung Sun
AU - Son, Gil Soo
AU - Lee, Hye Yoon
AU - Chang, Young Woo
AU - Park, Eun Kyung
AU - Cha, Sang Hoon
AU - Cho, Yunjung
AU - Hong, Hyosun
AU - Cho, Kyu Ran
AU - Song, Sung Eun
AU - Woo, Ok Hee
AU - Lee, Ju Han
AU - Cha, Jaehyung
AU - Seo, Bo Kyoung
PY - 2020
Y1 - 2020
N2 - Background: Radiogenomic investigations for breast cancer provide an understanding of tumor heterogeneity and discover image phenotypes of genetic variation. However, there is little research on the correlations between US features of breast cancer and whole-transcriptome profiling. Purpose: To explore US phenotypes reflecting genetic alteration relevant to breast cancer treatment and prognosis by comparing US images of tumor with their RNA sequencing results. Materials and Methods: From January to October 2016, B-mode and vascular US images in 31 women (mean age, 49 years 6 9 [standard deviation]) with breast cancer were prospectively analyzed. B-mode features included size, shape, echo pattern, orientation, margin, and calcifications. Vascular features were evaluated by using microvascular US and contrast agent–enhanced US: vascular index, vessel morphologic features, distribution, penetrating vessels, enhancement degree, order, margin, internal homogeneity, and perfusion defect. RNA sequencing was conducted with total RNA obtained from a surgical specimen by using next-generation sequencing. US features were compared with gene expression profiles, and ingenuity pathway analysis was used to analyze gene networks, enriched functions, and canonical pathways associated with breast cancer. The P value for differential expression was extracted by using a parametric F test comparing nested linear models. Results: Thirteen US features were associated with various patterns of 340 genes (P , .05). Nonparallel orientation at B-mode US was associated with upregulation of TFF1 (log twofold change [log2FC] = 4.0; P , .001), TFF3 (log2FC = 2.5; P , .001), AREG (log2FC = 2.6; P = .005), and AGR3 (log2FC = 2.6; P = .003). Complex vessel morphologic structure was associated with upregulation of FZD8 (log2FC = 2.0; P = .01) and downregulation of IGF1R (log2FC = 22.0; P = .006) and CRIPAK (log2FC = 22.4; P = .01). The top networks with regard to orientation or vessel morphologic structure were associated with cell cycle, death, and proliferation. Conclusion: Compared with RNA sequencing, B-mode and vascular US features reflected genomic alterations associated with hormone receptor status, angiogenesis, or prognosis in breast cancer.
AB - Background: Radiogenomic investigations for breast cancer provide an understanding of tumor heterogeneity and discover image phenotypes of genetic variation. However, there is little research on the correlations between US features of breast cancer and whole-transcriptome profiling. Purpose: To explore US phenotypes reflecting genetic alteration relevant to breast cancer treatment and prognosis by comparing US images of tumor with their RNA sequencing results. Materials and Methods: From January to October 2016, B-mode and vascular US images in 31 women (mean age, 49 years 6 9 [standard deviation]) with breast cancer were prospectively analyzed. B-mode features included size, shape, echo pattern, orientation, margin, and calcifications. Vascular features were evaluated by using microvascular US and contrast agent–enhanced US: vascular index, vessel morphologic features, distribution, penetrating vessels, enhancement degree, order, margin, internal homogeneity, and perfusion defect. RNA sequencing was conducted with total RNA obtained from a surgical specimen by using next-generation sequencing. US features were compared with gene expression profiles, and ingenuity pathway analysis was used to analyze gene networks, enriched functions, and canonical pathways associated with breast cancer. The P value for differential expression was extracted by using a parametric F test comparing nested linear models. Results: Thirteen US features were associated with various patterns of 340 genes (P , .05). Nonparallel orientation at B-mode US was associated with upregulation of TFF1 (log twofold change [log2FC] = 4.0; P , .001), TFF3 (log2FC = 2.5; P , .001), AREG (log2FC = 2.6; P = .005), and AGR3 (log2FC = 2.6; P = .003). Complex vessel morphologic structure was associated with upregulation of FZD8 (log2FC = 2.0; P = .01) and downregulation of IGF1R (log2FC = 22.0; P = .006) and CRIPAK (log2FC = 22.4; P = .01). The top networks with regard to orientation or vessel morphologic structure were associated with cell cycle, death, and proliferation. Conclusion: Compared with RNA sequencing, B-mode and vascular US features reflected genomic alterations associated with hormone receptor status, angiogenesis, or prognosis in breast cancer.
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U2 - 10.1148/radiol.2020191368
DO - 10.1148/radiol.2020191368
M3 - Article
C2 - 32013793
AN - SCOPUS:85082145842
VL - 295
SP - 24
EP - 34
JO - Radiology
JF - Radiology
SN - 0033-8419
IS - 1
ER -