circFBLIM1 act as a ceRNA to promote hepatocellular cancer progression by sponging miR-346

Bai, Ning; Peng, Eming; Qiu, Xingsheng; Lyu, Ning; Zhang, Zhejia; Tao, Yiming; Li, Xinying; Wang, Zhiming

doi:10.1186/s13046-018-0838-8

Cited by 140 publications

(116 citation statements)

References 35 publications

(33 reference statements)

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“…For example, hsa_circ_0061140 regulates the miR‐370 /forkhead box M1 pathway to promote the epithelial‐mesenchymal transition and thus enhances the growth and metastasis of ovarian cancer cells . circFBLIM1 can act as a competing endogenous RNA to regulate the expression of filamin binding LIM protein 1 through sponging miR‐346 in hepatocellular carcinoma . Similarly, circGFRA1 regulates the expression of glial cell‐derived neurotrophic factor family receptor‐α1 through sponging miR‐34a to exert regulatory functions in triple‐negative breast cancer .…”

Section: Introductionmentioning

confidence: 99%

“…23 circFBLIM1 can act as a competing endogenous RNA to regulate the expression of filamin binding LIM protein 1 through sponging miR-346 in hepatocellular carcinoma. 24 Similarly, circGFRA1 regulates the expression of glial cell-derived neurotrophic factor family receptor-α1 through sponging miR-34a to exert regulatory functions in triple-negative breast cancer. 25 However, most circRNAs and their pathological functions in malignant tumors are still unknown.…”

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confidence: 99%

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circMAN1A2 could serve as a novel serum biomarker for malignant tumors

et al. 2019

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Novel diagnostic and prognostic biomarkers of cancers are needed to improve precision medicine. Circular RNAs act as important regulators in cancers at the transcriptional and posttranscriptional levels. The circular RNA circMAN1A2 is highly expressed in nasopharyngeal carcinoma according to our previous RNA sequencing data; however, the expression and functions of circMAN1A2 in cancers are still obscure. Therefore, in this study, we evaluated the expression of circMAN1A2 in the sera of patients with nasopharyngeal carcinoma and other malignant tumors and analyzed its correlations with clinical features and diagnostic values. The expression levels of circMAN1A2 were detected by quantitative real‐time PCR, and the correlations of clinical features with circMAN1A2 expression were analyzed by χ2 tests. Receiver operating characteristic curves were used to evaluate the clinical applications of circMAN1A2. The results showed that circMAN1A2 was upregulated in nasopharyngeal carcinoma, oral cancer, thyroid cancer, ovarian cancer, and lung cancer, with areas under the curves of 0.911, 0.779, 0.734, 0.694, and 0.645, respectively, indicating the good diagnostic value of circMAN1A2. Overall, our findings suggested that circMAN1A2 could be a serum biomarker for malignant tumors, providing important insights into diagnostic approaches for malignant tumors. Further studies are needed to elucidate the mechanisms of circMAN1A2 in the pathogenesis of cancer.

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Section: Introductionmentioning

confidence: 99%

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confidence: 99%

circMAN1A2 could serve as a novel serum biomarker for malignant tumors

et al. 2019

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“…MiR‐346 acts as an important oncogene in breast cancer, osteosarcoma (OS), and hepatocellular cancer (HCC) . Interestingly, miR‐346 was reported to functionally target GSK‐3β, a negative regulator of canonical Wnt/β‐catenin signaling .…”

Section: Discussionmentioning

confidence: 99%

LncRNA NBAT1 suppresses cell proliferation and migration via miR‐346/GSK‐3β axis in renal carcinoma

Xue

Wang

et al. 2019

IUBMB Life

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Long non-coding RNA (LncRNA) neuroblastoma associated transcript 1 (NBAT1) was demonstrated to be significantly downregulated in renal carcinoma (RCC) cells. However, the function and mechanism of NBAT1 in RCC is poorly understood. The expression of NBAT1 and glycogen synthase kinase-3β (GSK-3β)-mediated Wnt/βcatenin-related proteins were measured by quantitative real-time PCR (qRT-PCR) and western blotting in RCC cell lines. Cell viability, migration, and invasion were estimated by CCK-8 and Transwell assay. The association of miR-346 with GSK-3β expression was verified using luciferase assay. NBAT1 was significantly downregulated in RCC cells, and inhibited RCC cell proliferation, migration, and invasion. Furthermore, NBAT1 negatively regulated miR-346 expression. In addition, miR-346 overexpression and the knockdown of GSK-3β, a direct target of miR-346 could overturn the inhibitory effect of NBAT1 on Wnt/β-catenin signaling and cell proliferation, migration, and invasion. NBAT1 functioned as an endogenous sponge by competing for miR-346 binding to GSK-3β and therefore alleviated RCC cells.

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“…Cyclum performed the best in this analysis (Figure 4a and Additional file 1, Table S2), even on samples that reportedly had few cycling cells (e.g., Mel79). Among the novel cell-cycling genes nominated by Cyclum (Additional file 1, Table S2, Figure S3, and S4), KCNQ1OT1 and FBLIM1 (Additional file 1, Figure S3, and Table S3) have recently been shown in the literature to be related to proliferation and tumorigenesis [21][22][23][24][25][26].…”

Section: Application Of Cyclum On the Melanoma Datamentioning

confidence: 99%

Latent periodic process inference from single-cell RNA-seq data

Liang

Wang

Han

et al. 2019

Preprint

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Convoluted biological processes underlie the development of multicellular organisms and diseases. Advances in scRNA-seq make it possible to study these processes from cells at various developmental stages. Achieving accurate characterization is challenging, however, particularly for periodic processes, such as cell cycles. To address this, we developed Cyclum, a novel AutoEncoder approach that characterizes circular trajectories in the high-dimensional gene expression space. Cyclum substantially improves the accuracy and robustness of cell-cycle characterization beyond existing approaches. Applying Cyclum to removing cell-cycle effects leads to substantially improved delineations of cell subpopulations, which is useful for establishing various cell atlases and studying tumor heterogeneity. Cyclum is available at https://github.com/KChen-lab/cyclum. BackgroundConvoluted biological processes, which involve cell proliferation, differentiation, state transition, and cell-to-cell communication [1,2]. The course of development can be influenced by genetic (e.g., mutations), epigenetic, and environmental factors. Alterations to the genome, transcriptome, and proteome of individual cells also can result in pathogeneses [3]. Early efforts have been made to reconstruct the temporal ordering of biological samples using bulk data [4,5], although challenges associated with cellular heterogeneity make it difficult to infer accurate time series. Advances in single-cell RNA sequencing (scRNA-seq) enabled large-scale acquisition of singlecell transcriptomic profiles and provided an unprecedented opportunity to uncover latent biological processes that orchestrate dynamic expression of genes in single cells throughout the course of the development [6]. However, it is very challenging to deconvolute these processes from scRNA-seq data accurately. A sufficiently large number of cells across time, lineage, and space need to be sampled in order to capture detailed sub-populational features and reduce technological noise. Tremendous efforts have been made to develop trajectory inference methods from scRNA-seq data. Over 59 methods have been developed since 2014 [7], including the widely known Monocle and Wanderlust. These methods represent biological processes in linear, bifurcating, or other graph topologies.In many developmental processes, such as embryogenesis, organogenesis, and tumorigenesis [8], cell cycle plays a fundamental role. Distinct from processes that evoke linear changes in gene expression, cell cycle causes periodicity. A cycle starts from the G1 phase, goes through S and G2/M, and then returns to G1 within 24-hours for human cells [2]. This process is orchestrated elegantly by variable sets of genes (e.g., cyclins and cyclin-dependent kinases) that are turned on and off at relatively precise timings. As a result of such periodicity, the cycling cells at different transcriptomic states form a circular, non-linear trajectory in high-dimensional gene expression spaces. The positions of a cell alongside the circular trajec...

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circFBLIM1 act as a ceRNA to promote hepatocellular cancer progression by sponging miR-346

Cited by 140 publications

References 35 publications

circMAN1A2 could serve as a novel serum biomarker for malignant tumors

circMAN1A2 could serve as a novel serum biomarker for malignant tumors

LncRNA NBAT1 suppresses cell proliferation and migration via miR‐346/GSK‐3β axis in renal carcinoma

Latent periodic process inference from single-cell RNA-seq data

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