miRNA expression profiling of 51 human breast cancer cell lines reveals subtype and driver mutation-specific miRNAs

Riaz, Muhammad Bilal; Jaarsveld, Marijn T. M. van; Hollestelle, Antoinette; Smissen, Wendy J. C. Prager–van der; Heine, Anouk A. J.; Boersma, Antonius W. M.; Liu, Jingjing; Helmijr, Jean C. A.; Ozturk, Bahar; Smid, Marcel; Wiemer, Erik A.C.; Foekens, John A.; Martens, John W.M.

doi:10.1186/bcr3415

Cited by 188 publications

(207 citation statements)

References 64 publications

(68 reference statements)

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“…(A) Quantitative PCR for TGFBR 2 mRNA expression in breast cancer cell lines using breast cancer cell line microarray database for TGFBR 2 (Riaz et al ., 2013) (luminal n = 18; luminal HER 2 n = 9; basal‐like n = 19; HER 2 enriched n = 3; Student's unpaired t ‐test). (B) Flow cytometry analysis for TGFBR 2 of breast cancer cell lines of different subtypes and the fibrocystic cell line with the basal‐like genotype MCF 10A.…”

Section: Resultsmentioning

confidence: 99%

“…Protein expression was measured with RPPA . (D) Quantitative PCR mRNA expression analysis in breast cancer cell lines using breast cancer cell line microarray database (Riaz et al ., 2013). (E) Flow cytometry analysis of breast cancer cell lines of luminal and basal‐like breast cancer subtypes and the fibrocystic cell line with the basal‐like genotype MCF 10A.…”

Section: Resultsmentioning

confidence: 99%

“…Next, we investigated whether the expression of MET is related to specific breast cancer subtypes and therefore checked its differential expression in cell lines of different breast cancer subtypes (Riaz et al ., 2013). This analysis revealed that MET is higher expressed in basal‐like compared to luminal as well as in ER‐negative compared to ER‐positive breast cancer cell lines (Figs 2D and S4A).…”

Section: Resultsmentioning

confidence: 99%

“…A dataset containing mRNA expression of 51 breast cancer cells (Riaz et al ., 2013) was used for mRNA expression analysis of TGFBR2 and MET. Cell lines were classified into luminal and basal according to their molecular characteristics (Neve et al ., 2006).…”

Section: Methodsmentioning

confidence: 99%

“…In this study, we performed a genomewide correlation analysis of TGFBR2 in a panel of 51 breast cancer cell lines (Riaz et al ., 2013) to identify genes which are coregulated with TGFBR2 and to test their impact on cell migration. MET was one of the top positively correlated genes with TGFBR2 in these breast cancer cell lines.…”

Section: Introductionmentioning

confidence: 99%

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TGFβ1 regulates HGF‐induced cell migration and hepatocyte growth factor receptor MET expression via C‐ets‐1 and miR‐128‐3p in basal‐like breast cancer

et al. 2018

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Breast cancer is the most common cancer in women worldwide. The tumor microenvironment contributes to tumor progression by inducing cell dissemination from the primary tumor and metastasis. TGFβ signaling is involved in breast cancer progression and is specifically elevated during metastatic transformation in aggressive breast cancer. In this study, we performed genomewide correlation analysis of TGFBR2 expression in a panel of 51 breast cancer cell lines and identified that MET is coregulated with TGFBR2. This correlation was confirmed at the protein level in breast cancer cell lines and human tumor tissues. Flow cytometric analysis of luminal and basal‐like breast cancer cell lines and examination of 801 tumor specimens from a prospective cohort of breast cancer patients using reverse phase protein arrays revealed that expression of TGFBR2 and MET is increased in basal‐like breast cancer cell lines, as well as in triple‐negative breast cancer tumor tissues, compared to other subtypes. Using real‐time cell analysis technology, we demonstrated that TGFβ1 triggered hepatocyte growth factor (HGF)‐induced and MET‐dependent migration in vitro. Bioinformatic analysis predicted that TGFβ1 induces expression of C‐ets‐1 as a candidate transcription factor regulating MET expression. Indeed, TGFβ1‐induced expression of ETS1 and breast cancer cell migration was blocked by knockdown of ETS1. Further, we identified that MET is a direct target of miR‐128‐3p and that this miRNA is negatively regulated by TGFβ1. Overexpression of miR‐128‐3p reduced MET expression and abrogated HGF‐induced cell migration of invasive breast cancer cells. In conclusion, we have identified that TGFβ1 regulates HGF‐induced and MET‐mediated cell migration, through positive regulation of C‐ets‐1 and negative regulation of miR‐128‐3p expression in basal‐like breast cancer cell lines and in triple‐negative breast cancer tissue.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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TGFβ1 regulates HGF‐induced cell migration and hepatocyte growth factor receptor MET expression via C‐ets‐1 and miR‐128‐3p in basal‐like breast cancer

et al. 2018

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Genotranscriptomic meta‐analysis of the CHD family chromatin remodelers in human cancers – initial evidence of an oncogenic role for CHD7

et al. 2017

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Chromodomain helicase DNA binding proteins (CHDs) are characterized by N‐terminal tandem chromodomains and a central adenosine triphosphate‐dependent helicase domain. CHDs govern the cellular machinery's access to DNA, thereby playing critical roles in various cellular processes including transcription, proliferation, and DNA damage repair. Accumulating evidence demonstrates that mutation and dysregulation of CHDs are implicated in the pathogenesis of developmental disorders and cancer. However, we know little about genomic and transcriptomic alterations and the clinical significance of most CHDs in human cancer. We used TCGA and METABRIC datasets to perform integrated genomic and transcriptomic analyses of nine CHD genes in more than 10 000 primary cancer specimens from 32 tumor types, focusing on breast cancers. We identified associations among recurrent copy number alteration, gene expression, clinicopathological features, and patient survival. We found that CHD7 was the most commonly gained/amplified and mutated, whereas CHD3 was the most deleted across the majority of tumor types, including breast cancer. Overexpression of CHD7 was more prevalent in aggressive subtypes of breast cancer and was significantly correlated with high tumor grade and poor prognosis. CHD7 is required to maintain open, accessible chromatin, thus providing fine‐tuning of transcriptional regulation of certain classes of genes. We found that CHD7 expression was positively correlated with a small subset of classical oncogenes, notably NRAS, in breast cancer. Knockdown of CHD7 inhibits cell proliferation and decreases gene expression of several CHD7 targets, including NRAS, in breast cancer cell lines. Thus, our results demonstrate the oncogenic potential of CHD7 and its association with poor prognostic parameters in human cancer.

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Membrane Protein Modification Modulates Big and Small Extracellular Vesicle Biodistribution and Tumorigenic Potential in Breast Cancers In Vivo

Magoling

Chen

et al. 2023

Advanced Materials

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Figure 2. Comparison of size and detection limit between PalmGRET-and dye-labeled bEVs and sEVs. a) NTA of 4T1-bEVs and -sEVs demonstrating distinct size distributions (left; representative data of three independent experiments) and mean sizes (right; determined from three independent experiments). n.s., p > 0.05; *p < 0.05 with 2-tailed Student's t-test. b) Schematic of inner EV membrane labeling using PalmGRET (top) and outer EV membrane labeling using lipophilic fluorescent dyes (bottom). c) Dot blot analysis showing that PalmGRET labeled the inner membrane of bEVs and sEVs. The positive control was whole cell lysates (WCL). d) Representative TEM images of 4T1-PalmGRET-bEVs and -sEVs. The same imaging parameters were used to acquire bEV and sEV TEM images. Images on the right of each row depict the enlarged images of the boxed regions (red). Black scale bar: 200 nm; red scale bar: 100 nm. e) Mean particle size (left) and particle size distribution (right) of 4T1-PalmGRET-bEVs and -sEVs determined from TEM image analysis. The bEV and sEV particles (N = 400 per group) in the captured TEM images were analyzed using Fiji software (ImageJ, NIH) to measure individual particle sizes (left). Size distribution analysis of bEVs and sEVs (right) demonstrating that bEVs are largely composed of 201-400 nm particles, while sEVs mainly consist of 1-100 and 101-200 nm particles. ****p < 0.0001 with 2-tailed Student's t-test. f-h) NTA of PalmGRET-and dye-labeled 4T1-EVs. f) Size distribution and g) mean size of bEVs and sEVs labeled with PalmGRET or colabeled with PKH26, DiD, and DiR are shown. h) Analysis of particle size composition of the bEVs and sEVs showed that PalmGRET did not change the size distribution in all size divisions as compared to the WT EV controls. The 101-200 nm particles were decreased, while the 201-300 nm and 301-500 nm particles were increased among the lipophilic-dye-labeled bEVs. Similarly, the 101-200 nm particles were decreased and 201-300 nm particles were increased among the lipophilic-dye-labeled sEVs. Data are from three independent experiments. n.s., p > 0.05; *p < 0.05; **p < 0.01 with 1-way ANOVA followed by Dunnett's post hoc test versus the control.

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miRNA expression profiling of 51 human breast cancer cell lines reveals subtype and driver mutation-specific miRNAs

Cited by 188 publications

References 64 publications

TGFβ1 regulates HGF‐induced cell migration and hepatocyte growth factor receptor MET expression via C‐ets‐1 and miR‐128‐3p in basal‐like breast cancer

TGFβ1 regulates HGF‐induced cell migration and hepatocyte growth factor receptor MET expression via C‐ets‐1 and miR‐128‐3p in basal‐like breast cancer

Genotranscriptomic meta‐analysis of the CHD family chromatin remodelers in human cancers – initial evidence of an oncogenic role for CHD7

Membrane Protein Modification Modulates Big and Small Extracellular Vesicle Biodistribution and Tumorigenic Potential in Breast Cancers In Vivo

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