94 results on '"Yixiao Feng"'
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2. Design of a current controller for symmetrical six‐phase fault‐tolerant PMSM under fault conditions
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Yixiao Feng, Yong Liao, and Fan Ye
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Electronics ,TK7800-8360 - Abstract
Abstract To achieve the fault‐tolerant operation of motor drives, many control algorithms have been proposed. Among them, it is more flexible and intuitive to find solutions to phase current at phase coordinate. Then it is necessary to track the given phase current. Up to now, several current controllers have been proposed. A hysteresis controller suffers from the drawback of the variable switching frequency. Proportional–integral control cannot track ac signals with zero error. As to the proportional resonant controller, its performance is highly dependent on the accuracy of motor speed detection. Considering this, a current controller is based on the adaptive filter. The adaptive filer is worked as the current controller by adjusting its structure, in which the motor model is extra introduced. The controller updates the tap weight in each control cycle until it outputs the optimal voltage to track the given phase current. Besides, the adaptive algorithm is improved by adding a feedforward term to gain a higher dynamic response. Moreover, to ensure the stability of the controller, the control parameter selection principles are analysed and acquired accordingly. Finally, several groups of experiments are conducted. The experiment results coincide with the analysis.
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- 2022
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3. Corrigendum to 'The development of a sensitive fluorescent protein-based transcript reporter for high throughput screening of negative modulators of lncRNAs' [Genes & Diseases 5 (2018) 62–74]
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Zongyue Zeng, Bo Huang, Shifeng Huang, Ruyi Zhang, Shujuan Yan, Xinyi Yu, Yi Shu, Chen Zhao, Jiayan Lei, Wenwen Zhang, Chao Yang, Ke Wu, Ying Wu, Liping An, Xiaojuan Ji, Cheng Gong, Chengfu Yuan, Linghuan Zhang, Wei Liu, Yixiao Feng, Bo Zhang, Zhengyu Dai, Yi Shen, Xi Wang, Wenping Luo, Rex C. Haydon, Hue H. Luu, Lan Zhou, Russell R. Reid, Tong-Chuan He, and Xingye Wu
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Published
- 2023
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4. Treatment of colorectal cancer by anticancer and antibacterial effects of hemiprotonic phenanthroline-phenanthroline+ with nanomicelle delivery
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Yingying Zhang, Zizhen Zhao, Jingli Li, Qinghua Wang, Zhigang Fan, Zhibo Yuan, Yixiao Feng, and Ailing Fu
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CRC ,Drug-loading nanomicelle ,Antibacteria ,Inflammation ,Therapeutics. Pharmacology ,RM1-950 - Abstract
Colorectal cancer (CRC) is a common digestive tract tumor worldwide. Specific microorganisms, including Fusobacterium nucleatum (F. nucleatum) and Escherichia coli (E. coli), are abundant in colonic mucosa and can promote the cancer progression and malignancy. Therefore, a therapeutic strategy is proposed to deliver effective drugs to colorectum for both anticancer and antibacteria. Here we used thin-film dispersion method to encapsulate hemiprotonic phenanthroline-phenanthroline+ (ph-ph+) into nanomicelle. The results showed that the drug-loading nanomicelle had good dispersion, and the particle size was about 28 nm. In vitro assay indicated that the nanomicelle was active against CRC-related obligate and facultative anaerobes. In human CRC cells, the nanomicelle could effectively inhibit cell proliferation and induce apoptosis. In vivo distribution showed that the nanomicelle could release ph-ph+ mainly in the colorectum. In CRC model mice, the nanomicelle significantly reduced tumor number and volume, and decreased the bacteria load and colorectal inflammation. Together, the study identifies that the ph-ph+nanomicelle has the potential to apply in treating CRC, and also suggests that anticancer combined with antimicrobial therapy would be a feasible way for CRC therapy.
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- 2023
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5. A Novel Modulation-Based Current Harmonic Control Strategy for PMSM Considering Current Measurement Error and Asymmetric Impedance
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Hao Lin, Yong Liao, Luocheng Yan, Fu Li, and Yixiao Feng
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Permanent magnet synchronous machine (PMSM) ,current harmonic ,asymmetric impedance ,current measurement error ,Electrical engineering. Electronics. Nuclear engineering ,TK1-9971 - Abstract
The permanent magnet synchronous machines system includes various harmonics caused by asymmetric impedance, current measurement errors, spatial harmonics, and inverter nonlinearity. The asymmetric impedance and the current measurement scaling error cause an asymmetry among three-phase currents, which produces a negative-sequence fundamental current. The controller cannot distinguish between their effects and reduce asymmetric currents. Therefore, a novel modulation-based current harmonic control strategy is proposed in this paper. The complex-vector system model accounting for these harmonics is established to illustrate the modulation effects of motor saliency, the asymmetric impedance, and the current measurement scaling error. According to modulation principles, the actual negative-sequence fundamental current is reconstructed to suppress the harmonic current caused by the asymmetric impedance. Meanwhile, the measured negative-sequence fundamental current is employed to compensate for the scaling error, and the DC component of current measurements is employed to compensate for the offset. The harmonic current controller also suppresses other harmonic currents. The harmonic current controller and the current measurement compensator based on the complex vector control are designed. Experiments verify the correctness and feasibility of the proposed control strategy.
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- 2022
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6. Corrigendum to 'Establishment and functional characterization of the reversibly immortalized mouse glomerular podocytes (imPODs)' [Genes & Diseases 5 (2018) 137–149]
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Xinyi Yu, Liqun Chen, Ke Wu, Shujuan Yan, Ruyi Zhang, Chen Zhao, Zongyue Zeng, Yi Shu, Shifeng Huang, Jiayan Lei, Xiaojuan Ji, Chengfu Yuan, Linghuan Zhang, Yixiao Feng, Wei Liu, Bo Huang, Bo Zhang, Wenping Luo, Xi Wang, Bo Liu, Rex C. Haydon, Hue H. Luu, Tong-Chuan He, and Hua Gan
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Published
- 2023
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7. A Third Harmonic Current Elimination Strategy for Symmetrical Six-Phase Permanent Magnet Synchronous Motor
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Yixiao Feng, Yong Liao, and Xueke Zhang
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Adaptive filter ,current controller ,harmonic suppression ,least mean square ,Electrical engineering. Electronics. Nuclear engineering ,TK1-9971 - Abstract
This paper mainly focuses on the third harmonic current suppression for symmetrical six-phase fault-tolerant permanent magnet synchronous motor drives. First, a brief motor model is established to analyze the source of the third harmonic current. Resonant controller is always appreciated in terms of harmonic current suppression. However, its performance is highly dependent on the precise motor speed, which makes it not suit for variable-speed applications. Fortunately, adaptive filter can skip this problem. Then a current controller based on the adaptive filter is designed to eliminate the third harmonic current. However, the dynamic response of the controller designed is unsatisfactory. Besides, the steady edge of the controller is rather narrow, which limits the operation range of the motor. Then some improvements are made to the structure of the controller as well as the adaptive algorithm. Finally, several groups of experiments are conducted to compare both steady performance and dynamic performance of the controller based on adaptive filter and the improved controller. The experiments results coincide with the analysis and several conclusions are drawn. Besides, the proposed controller also applies to the elimination of other harmonic currents.
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- 2021
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8. FAMSi: A Synthetic Biology Approach to the Fast Assembly of Multiplex siRNAs for Silencing Gene Expression in Mammalian Cells
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Fang He, Na Ni, Zongyue Zeng, Di Wu, Yixiao Feng, Alexander J. Li, Benjamin Luu, Alissa F. Li, Kevin Qin, Eric Wang, Xi Wang, Xiaoxing Wu, Huaxiu Luo, Jing Zhang, Meng Zhang, Yukun Mao, Mikhail Pakvasa, William Wagstaff, Yongtao Zhang, Changchun Niu, Hao Wang, Linjuan Huang, Deyao Shi, Qing Liu, Xia Zhao, Kai Fu, Russell R. Reid, Jennifer Moriatis Wolf, Michael J. Lee, Kelly Hynes, Jason Strelzow, Mostafa El Dafrawy, Hua Gan, Tong-Chuan He, and Jiaming Fan
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RNA interference ,RNAi ,double-stranded small interfering RNA ,siRNA ,BMP9/Smad signaling ,mesenchymal stem cells ,Therapeutics. Pharmacology ,RM1-950 - Abstract
RNA interference (RNAi) is mediated by an ∼21-nt double-stranded small interfering RNA (siRNA) and shows great promise in delineating gene functions and in developing therapeutics for human diseases. However, effective gene silencing usually requires the delivery of multiple siRNAs for a given gene, which is often technically challenging and time-consuming. In this study, by exploiting the type IIS restriction endonuclease-based synthetic biology methodology, we developed the fast assembly of multiplex siRNAs (FAMSi) system. In our proof-of-concept experiments, we demonstrated that multiple fragments containing three, four, or five siRNA sites targeting common Smad4 and/or BMPR-specific Smad1, Smad5, and Smad8 required for BMP9 signaling could be assembled efficiently. The constructed multiplex siRNAs effectively knocked down the expression of Smad4 and/or Smad1, Smad5, and Smad8 in mesenchymal stem cells (MSCs), and they inhibited all aspects of BMP9-induced osteogenic differentiation in bone marrow MSCs (BMSCs), including decreased expression of osteogenic regulators/markers, reduced osteogenic marker alkaline phosphatase (ALP) activity, and diminished in vitro matrix mineralization and in vivo ectopic bone formation. Collectively, we demonstrate that the engineered FAMSi system provides a fast-track platform for assembling multiplexed siRNAs in a single vector, and thus it may be a valuable tool to study gene functions or to develop novel siRNA-based therapeutics.
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- 2020
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9. A reverse transcriptase-mediated ribosomal RNA depletion (RTR2D) strategy for the cost-effective construction of RNA sequencing libraries
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Zongyue Zeng, Bo Huang, Xi Wang, Jiaming Fan, Bo Zhang, Lijuan Yang, Yixiao Feng, Xiaoxing Wu, Huaxiu Luo, Jing Zhang, Meng Zhang, Fang He, Yukun Mao, Mikhail Pakvasa, William Wagstaff, Alexander J. Li, Bin Liu, Huimin Ding, Yongtao Zhang, Changchun Niu, Meng Wu, Xia Zhao, Jennifer Moriatis Wolf, Michael J. Lee, Ailong Huang, Hue H. Luu, Rex C. Haydon, and Tong-Chuan He
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Whole transcriptome analysis ,Ribosomal RNAs ,RNA-seq ,rRNA removal ,Reverse transcription ,Next-generation sequencing ,Medicine (General) ,R5-920 ,Science (General) ,Q1-390 - Abstract
RNA sequencing (RNA-seq)-based whole transcriptome analysis (WTA) using ever-evolving next-generation sequencing technologies has become a primary tool for coding and/or noncoding transcriptome profiling. As WTA requires RNA-seq data for both coding and noncoding RNAs, one key step for obtaining high-quality RNA-seq data is to remove ribosomal RNAs, which can be accomplished by using various commercial kits. Nonetheless, an ideal rRNA removal method should be efficient, user-friendly and cost-effective so it can be adapted for homemade RNA-seq library construction. Here, we developed a novel reverse transcriptase-mediated ribosomal RNA depletion (RTR2D) method. We demonstrated that RTR2D was simple and efficient, and depleted human or mouse rRNAs with high specificity without affecting coding and noncoding transcripts. RNA-seq data analysis indicated that RTR2D yielded highly correlative transcriptome landscape with that of NEBNext rRNA Depletion Kit at both mRNA and lncRNA levels. In a proof-of-principle study, we found that RNA-seq dataset from RTR2D-depleted rRNA samples identified more differentially expressed mRNAs and lncRNAs regulated by Nutlin3A in human osteosarcoma cells than that from NEBNext rRNA Depletion samples, suggesting that RTR2D may have lower off-target depletion of non-rRNA transcripts. Collectively, our results have demonstrated that the RTR2D methodology should be a valuable tool for rRNA depletion.
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- 2020
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10. Highly expressed BMP9/GDF2 in postnatal mouse liver and lungs may account for its pleiotropic effects on stem cell differentiation, angiogenesis, tumor growth and metabolism
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Wei Liu, Zhongliang Deng, Zongyue Zeng, Jiaming Fan, Yixiao Feng, Xi Wang, Daigui Cao, Bo Zhang, Lijuan Yang, Bin Liu, Mikhail Pakvasa, William Wagstaff, Xiaoxing Wu, Huaxiu Luo, Jing Zhang, Meng Zhang, Fang He, Yukun Mao, Huiming Ding, Yongtao Zhang, Changchun Niu, Rex C. Haydon, Hue H. Luu, Jennifer Moriatis Wolf, Michael J. Lee, Wei Huang, Tong-Chuan He, and Yulong Zou
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Abstract
Bone morphogenetic protein 9 (BMP9) (or GDF2) was originally identified from fetal mouse liver cDNA libraries. Emerging evidence indicates BMP9 exerts diverse and pleiotropic functions during postnatal development and in maintaining tissue homeostasis. However, the expression landscape of BMP9 signaling during development and/or in adult tissues remains to be analyzed. Here, we conducted a comprehensive analysis of the expression landscape of BMP9 and its signaling mediators in postnatal mice. By analyzing mouse ENCODE transcriptome datasets we found Bmp9 was highly expressed in the liver and detectable in embryonic brain, adult lungs and adult placenta. We next conducted a comprehensive qPCR analysis of RNAs isolated from major mouse tissues/organs at various ages. We found that Bmp9 was highly expressed in the liver and lung tissues of young adult mice, but decreased in older mice. Interestingly, Bmp9 was only expressed at low to modest levels in developing bones. BMP9-associated TGFβ/BMPR type I receptor Alk1 was highly expressed in the adult lungs. Furthermore, the feedback inhibitor Smads Smad6 and Smad7 were widely expressed in mouse postnatal tissues. However, the BMP signaling antagonist noggin was highly expressed in fat and heart in the older age groups, as well as in kidney, liver and lungs in a biphasic fashion. Thus, our findings indicate that the circulating BMP9 produced in liver and lungs may account for its pleiotropic effects on postnatal tissues/organs although possible roles of BMP9 signaling in liver and lungs remain to be fully understood. Keywords: BMP9/GDF2, Bone morphogenetic proteins (BMPs), Hepatic metabolism, Mesenchymal stem cells, Neurogenesis, Osteogenic differentiation, Pulmonary arterial hypertension, Tumorigenesis
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- 2020
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11. Stem cell therapy for chronic skin wounds in the era of personalized medicine: From bench to bedside
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Elam Coalson, Elliot Bishop, Wei Liu, Yixiao Feng, Mia Spezia, Bo Liu, Yi Shen, Di Wu, Scott Du, Alexander J. Li, Zhenyu Ye, Ling Zhao, Daigui Cao, Alissa Li, Ofir Hagag, Alison Deng, Winny Liu, Mingyang Li, Rex C. Haydon, Lewis Shi, Aravind Athiviraham, Michael J. Lee, Jennifer Moriatis Wolf, Guillermo A. Ameer, Tong-Chuan He, and Russell R. Reid
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Abstract
With the significant financial burden of chronic cutaneous wounds on the healthcare system, not to the personal burden mention on those individuals afflicted, it has become increasingly essential to improve our clinical treatments. This requires the translation of the most recent benchtop approaches to clinical wound repair as our current treatment modalities have proven insufficient. The most promising potential treatment options rely on stem cell-based therapies. Stem cell proliferation and signaling play crucial roles in every phase of the wound healing process and chronic wounds are often associated with impaired stem cell function. Clinical approaches involving stem cells could thus be utilized in some cases to improve a body's inhibited healing capacity. We aim to present the laboratory research behind the mechanisms and effects of this technology as well as current clinical trials which showcase their therapeutic potential. Given the current problems and complications presented by chronic wounds, we hope to show that developing the clinical applications of stem cell therapies is the rational next step in improving wound care. Keywords: Chronic inflammation, Chronic wounds, Growth factors, Personalized medicine, Skin, Stem cells, Wound healing
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- 2019
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12. A Simplified System to Express Circularized Inhibitors of miRNA for Stable and Potent Suppression of miRNA Functions
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Yi Shu, Ke Wu, Zongyue Zeng, Shifeng Huang, Xiaojuan Ji, Chengfu Yuan, Linghuan Zhang, Wei Liu, Bo Huang, Yixiao Feng, Bo Zhang, Zhengyu Dai, Yi Shen, Wenping Luo, Xi Wang, Bo Liu, Yan Lei, Zhenyu Ye, Ling Zhao, Daigui Cao, Lijuan Yang, Xian Chen, Hue H. Luu, Russell R. Reid, Jennifer Moriatis Wolf, Michael J. Lee, and Tong-Chuan He
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Therapeutics. Pharmacology ,RM1-950 - Abstract
MicroRNAs (miRNAs) are an evolutionarily conserved class of small regulatory noncoding RNAs, binding to complementary target mRNAs and resulting in mRNA translational inhibition or degradation, and they play an important role in regulating many aspects of physiologic and pathologic processes in mammalian cells. Thus, efficient manipulations of miRNA functions may be exploited as promising therapeutics for human diseases. Two commonly used strategies to inhibit miRNA functions include direct transfection of chemically synthesized miRNA inhibitors and delivery of a gene vector that instructs intracellular transcription of miRNA inhibitors. While most miRNA inhibitors are based on antisense molecules to bind and sequester miRNAs from their natural targets, it is challenging to achieve effective and stable miRNA inhibition. Here we develop a user-friendly system to express circular inhibitors of miRNA (CimiRs) by exploiting the noncanonical head-to-tail backsplicing mechanism for generating endogenous circular RNA sponges. In our proof-of-principle experiments, we demonstrate that the circular forms of the hsa-miR223-binding site of human β-arrestin1 (ARRB1) 3′ UTR sponge RNA (BUTR), the bulged anti-miR223 (cirBulg223) and bulged anti-miR21 (cirBulg21), exhibit more potent suppression of miRNA functions than their linear counterparts. Therefore, the engineered CimiR expression system should be a valuable tool to target miRNAs for basic and translational research. Keywords: microRNA, miRNA, miRNA sponge, circular RNA, miRNA inhibitor, competing endogenous RNA, miRNA decoy, noncoding RNA, oncomiR
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- 2018
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13. The epigenetically downregulated factor CYGB suppresses breast cancer through inhibition of glucose metabolism
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Yixiao Feng, Mingjun Wu, Shuman Li, Xiaoqian He, Jun Tang, Weiyan Peng, Beilei Zeng, Chuxia Deng, Guosheng Ren, and Tingxiu Xiang
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CYGB ,GLUT1 ,HXK2 ,p53 ,Breast cancer ,Metabolism ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Abstract Background Recent studies suggested the globin family member cytoglobin (CYGB) as a potential tumor suppressor; however, the mechanism by which CYGB suppresses cancer is elusive. We investigated the role and mechanism of CYGB in suppressing breast cancer. Methods CYGB expression was examined by reverse transcription PCR, quantitative reverse transcription PCR and open database analysis. Promoter methylation was examined by methylation-specific PCR. Metabolomics and proteomics were analyzed by gas chromatography-mass spectrometry and isobaric tags for relative and absolute quantitation, respectively. The effects and mechanisms of ectopic CYGB expression in breast cancer cells were assessed with molecular biological and cellular approaches in vitro and with a xenograft tumor model in nude mice. Results CYGB expression was downregulated in breast cancer tissues and cell lines, which was associated with promoter methylation. Ectopic CYGB expression suppressed proliferation, migration, invasion and induced apoptosis in breast cancer cell lines MCF7 (p53WT) and MB231 (p53mt) in vitro, and inhibited xenograft tumor growth in vivo. By proteomics and metabolomics analysis, glucose metabolism was found to be one of the main pathways suppressed by CYGB. The CYGB-expressing cells had lower ATP and compromised glycolysis. Additionally, CYGB suppressed key glucose metabolism factors including GLUT1 and HXK2 in p53-dependent and -independent manners. Restoration of GLUT1 or HXK2 expression attenuated CYGB-mediated proliferation suppression and apoptosis induction. Conclusions CYGB is a potential tumor suppressor in breast cancer that is epigenetically suppressed. The results for the first time suggest that CYGB suppresses breast cancer through inhibiting glucose metabolism, which could be exploited for breast cancer prevention and therapy.
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- 2018
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14. Establishment and functional characterization of the reversibly immortalized mouse glomerular podocytes (imPODs)
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Xinyi Yu, Liqun Chen, Ke Wu, Shujuan Yan, Ruyi Zhang, Chen Zhao, Zongyue Zeng, Yi Shu, Shifeng Huang, Jiayan Lei, Xiaojuan Ji, Chengfu Yuan, Linghuan Zhang, Yixiao Feng, Wei Liu, Bo Huang, Bo Zhang, Wenping Luo, Xi Wang, Bo Liu, Rex C. Haydon, Hue H. Luu, Tong-Chuan He, and Hua Gan
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Abstract
Glomerular podocytes are highly specialized epithelial cells and play an essential role in establishing the selective permeability of the glomerular filtration barrier of kidney. Maintaining the viability and structural integrity of podocytes is critical to the clinical management of glomerular diseases, which requires a thorough understanding of podocyte cell biology. As mature podocytes lose proliferative capacity, a conditionally SV40 mutant tsA58-immortalized mouse podocyte line (designated as tsPC) was established from the Immortomouse over 20 years ago. However, the utility of the tsPC cells is hampered by the practical inconvenience of culturing these cells. In this study, we establish a user-friendly and reversibly-immortalized mouse podocyte line (designated as imPOD), on the basis of the tsPC cells by stably expressing the wildtype SV40 T-antigen, which is flanked with FRT sites. We show the imPOD cells exhibit long-term high proliferative activity, which can be effectively reversed by FLP recombinase. The imPOD cells express most podocyte-related markers, including WT-1, Nephrin, Tubulin and Vinculin, but not differentiation marker Synaptopodin. The imPOD cells do not form tumor-like masses in vivo. We further demonstrate that TGFβ1 induces a podocyte injury-like response in the FLP-reverted imPOD cells by suppressing the expression of slit diaphragm-associated proteins P-Cadherin and ZO-1 and upregulating the expression of mesenchymal markers, α-SMA, Vimentin and Nestin, as well as fibrogenic factors CTGF and Col1a1. Collectively, our results strongly demonstrate that the newly engineered imPOD cells should be a valuable tool to study podocyte biology both under normal and under pathological conditions. Keywords: Chronic kidney disease, FLP recombinase, Glomerular disease, Glomerulus, Immortalization, Nephropathy, Podocyte, SV40 T antigen
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- 2018
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15. Characterization of the essential role of bone morphogenetic protein 9 (BMP9) in osteogenic differentiation of mesenchymal stem cells (MSCs) through RNA interference
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Shujuan Yan, Ruyi Zhang, Ke Wu, Jing Cui, Shifeng Huang, Xiaojuan Ji, Liping An, Chengfu Yuan, Cheng Gong, Linghuan Zhang, Wei Liu, Yixiao Feng, Bo Zhang, Zhengyu Dai, Yi Shen, Xi Wang, Wenping Luo, Bo Liu, Rex C. Haydon, Michael J. Lee, Russell R. Reid, Jennifer Moriatis Wolf, Qiong Shi, Hue H. Luu, Tong-Chuan He, and Yaguang Weng
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Abstract
Mesenchymal stem cells (MSCs) are multipotent stem cells and capable of differentiating into multiple cell types including osteoblastic, chondrogenic and adipogenic lineages. We previously identified BMP9 as one of the most potent BMPs that induce osteoblastic differentiation of MSCs although exact molecular mechanism through which BMP9 regulates osteogenic differentiation remains to be fully understood. Here, we seek to develop a recombinant adenovirus system to optimally silence mouse BMP9 and then characterize the important role of BMP9 in osteogenic differentiation of MSCs. Using two different siRNA bioinformatic prediction programs, we design five siRNAs targeting mouse BMP9 (or simB9), which are expressed under the control of the converging H1 and U6 promoters in recombinant adenovirus vectors. We demonstrate that two of the five siRNAs, simB9-4 and simB9-7, exhibit the highest efficiency on silencing exogenous mouse BMP9 in MSCs. Furthermore, simB9-4 and simB9-7 act synergistically in inhibiting BMP9-induced expression of osteogenic markers, matrix mineralization and ectopic bone formation from MSCs. Thus, our findings demonstrate the important role of BMP9 in osteogenic differentiation of MSCs. The characterized simB9 siRNAs may be used as an important tool to investigate the molecular mechanism behind BMP9 osteogenic signaling. Our results also indicate that recombinant adenovirus-mediated expression of siRNAs is efficient and sustained, and thus may be used as an effective delivery vehicle of siRNA therapeutics. Keywords: BMP9, Bone formation, Mesenchymal stem cells, Osteogenic differentiation, RNA interference, Recombinant adenovirus, siRNA
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- 2018
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16. Breast cancer development and progression: Risk factors, cancer stem cells, signaling pathways, genomics, and molecular pathogenesis
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Yixiao Feng, Mia Spezia, Shifeng Huang, Chengfu Yuan, Zongyue Zeng, Linghuan Zhang, Xiaojuan Ji, Wei Liu, Bo Huang, Wenping Luo, Bo Liu, Yan Lei, Scott Du, Akhila Vuppalapati, Hue H. Luu, Rex C. Haydon, Tong-Chuan He, and Guosheng Ren
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Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Abstract
As the most commonly occurring cancer in women worldwide, breast cancer poses a formidable public health challenge on a global scale. Breast cancer consists of a group of biologically and molecularly heterogeneous diseases originated from the breast. While the risk factors associated with this cancer varies with respect to other cancers, genetic predisposition, most notably mutations in BRCA1 or BRCA2 gene, is an important causative factor for this malignancy. Breast cancers can begin in different areas of the breast, such as the ducts, the lobules, or the tissue in between. Within the large group of diverse breast carcinomas, there are various denoted types of breast cancer based on their invasiveness relative to the primary tumor sites. It is important to distinguish between the various subtypes because they have different prognoses and treatment implications. As there are remarkable parallels between normal development and breast cancer progression at the molecular level, it has been postulated that breast cancer may be derived from mammary cancer stem cells. Normal breast development and mammary stem cells are regulated by several signaling pathways, such as estrogen receptors (ERs), HER2, and Wnt/β-catenin signaling pathways, which control stem cell proliferation, cell death, cell differentiation, and cell motility. Furthermore, emerging evidence indicates that epigenetic regulations and noncoding RNAs may play important roles in breast cancer development and may contribute to the heterogeneity and metastatic aspects of breast cancer, especially for triple-negative breast cancer. This review provides a comprehensive survey of the molecular, cellular and genetic aspects of breast cancer. Keywords: BRCA1/2, Breast cancer, Cancer stem cells, Estrogen receptors, HER2, Noncoding RNAs, Triple-negative breast cancer, Tumor heterogeneity
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- 2018
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17. Niclosamide Exhibits Potent Anticancer Activity and Synergizes with Sorafenib in Human Renal Cell Cancer Cells
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Xinyi Yu, Feng Liu, Liyi Zeng, Fang He, Ruyi Zhang, Shujuan Yan, Zongyue Zeng, Yi Shu, Chen Zhao, Xingye Wu, Jiayan Lei, Wenwen Zhang, Chao Yang, Ke Wu, Ying Wu, Liping An, Shifeng Huang, Xiaojuan Ji, Cheng Gong, Chengfu Yuan, Linghuan Zhang, Yixiao Feng, Bo Huang, Wei Liu, Bo Zhang, Zhengyu Dai, Xi Wang, Bo Liu, Rex C. Haydon, Hue H. Luu, Hua Gan, Tong-Chuan He, and Liqun Chen
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Niclosamide ,Renal cell carcinoma ,Kidney cancer ,Drug repurposing ,Metastatic renal cancer ,Targeted therapy ,Physiology ,QP1-981 ,Biochemistry ,QD415-436 - Abstract
Background/Aims: As the most lethal urological cancers, renal cell carcinoma (RCC) comprises a heterogeneous group of cancer with diverse genetic and molecular alterations. There is an unmet clinical need to develop efficacious therapeutics for advanced, metastatic and/or relapsed RCC. Here, we investigate whether anthelmintic drug Niclosamide exhibits anticancer activity and synergizes with targeted therapy Sorafenib in suppressing RCC cell proliferation. Methods: Cell proliferation and migration were assessed by Crystal violet staining, WST-1 assay, cell wounding and cell cycle analysis. Gene expression was assessed by qPCR. In vivo anticancer activity was assessed in xenograft tumor model. Results: We find that Niclosamide effectively inhibits cell proliferation, cell migration and cell cycle progression, and induces apoptosis in human renal cancer cells. Mechanistically, Niclosamide inhibits the expression of C-MYC and E2F1 while inducing the expression of PTEN in RCC cells. Niclosamide is further shown to synergize with Sorafenib in suppressing RCC cell proliferation and survival. In the xenograft tumor model, Niclosamide is shown to effectively inhibit tumor growth and suppress RCC cell proliferation. Conclusions: Niclosamide may be repurposed as a potent anticancer agent, which can potentiate the anticancer activity of the other agents targeting different signaling pathways in the treatment of human RCC.
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- 2018
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18. ADAMTS9 is Silenced by Epigenetic Disruption in Colorectal Cancer and Inhibits Cell Growth and Metastasis by Regulating Akt/p53 Signaling
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Ling Chen, Jun Tang, Yixiao Feng, Shuman Li, Qin Xiang, Xiaoqian He, Guosheng Ren, Weiyan Peng, and Tingxiu Xiang
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ADAMTS9 ,Colorectal cancer ,Tumor suppressor ,Methylation ,Physiology ,QP1-981 ,Biochemistry ,QD415-436 - Abstract
Background/Aims: ADAMTS (disintegrin-like and metalloproteinase with thrombospondin motifs) proteins are extracellular zinc metalloproteinases that play an important role in extracellular matrix assembly and degradation, connective tissue structuring, angiogenesis, and cell migration. Multiple studies suggest that ADAMTS proteins (e.g. ADAMTS9) can act as tumor suppressors. In gastric, esophageal, and nasopharyngeal carcinomas ADAMTS9 is frequently down-regulated by promoter methylation. Whether ADAMTS9 can function as a tumor suppressor gene (TSG) in colorectal cancer is still unclear. Methods: We performed immunohistochemistry, RT-PCR, and qRT-PCR, to examine the expression of ADAMTS9 in colorectal cancer cell lines and primary colorectal cancer tissues. Methylation-specific PCR was also carried out to investigate the promoter methylation status of ADAMTS9. We also explored the functions of ADAMTS9 in colorectal cancer cell lines through in vitro experiments. Results: ADAMTS9 expression was down-requlated or silenced in 83.3% (5/6) of colorectal cancer cell lines, and frequently repressed in 65.6% (21/32) of colorectal cancer tissues. Down-regulation of ADAMTS9 was partially due to promoter methylation. Exogenous expression of ADAMTS9 in colorectal cancer cell lines inhibited cell proliferation and migration through the regulation of cell cycle and apoptosis. In addition, ADAMTS9 prevented the activation of Akt, and its downstream targets in colorectal cancer cell lines. Conclusion: Our findings suggest ADAMTS9 is a TSG in colorectal cancer.
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- 2017
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19. Deadline-Driven Enhancements and Response Time Analysis of ROS2 Multi-threaded Executors.
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Zhengda Wu, Yixiao Feng, Mingtai Lv, Sining Yang, and Bo Zhang 0007
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- 2024
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20. Block-Map-Based Localization in Large-Scale Environment.
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Yixiao Feng, Zhou Jiang, Yongliang Shi, Yunlong Feng, Xiangyu Chen, Hao Zhao 0002, and Guyue Zhou
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- 2024
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21. Deep Reinforcement Learning Based TCP Congestion Control in UAV Assisted Wireless Networks.
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Yixiao Feng, Yining Wang, Bo Zhang, and Li Zhou
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- 2023
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22. Design of a Visual Guidance Robotic Assembly System for Flexible Satellite Equipment Unit Assembly.
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Yixiao Feng, Xiangyu Tian, Tiemin Li, and Yao Jiang 0003
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- 2023
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23. Multiscale Energy Network Tomography.
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Yixiao Feng and Nick Duffield
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- 2022
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24. Object-based terminal positioning solution within task-boosted global constraint for improving mobile robotic stacking accuracy.
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Zhiyuan Chen, Yixiao Feng, Tiemin Li, and Yao Jiang 0003
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- 2024
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25. SmartWatch: accurate traffic analysis and flow-state tracking for intrusion prevention using SmartNICs.
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Sourav Panda, Yixiao Feng, Sameer G. Kulkarni, K. K. Ramakrishnan, Nick Duffield, and Laxmi N. Bhuyan
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- 2021
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26. A SmartNIC-Accelerated Monitoring Platform for In-band Network Telemetry.
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Yixiao Feng, Sourav Panda, Sameer G. Kulkarni, K. K. Ramakrishnan, and Nick Duffield
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- 2020
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27. Measurement of mobile manipulator chassis pose change caused by suspension deformation and end-effector accuracy improvement based on multi-sensor fusion.
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Yixiao Feng, Xiangyu Tian, Tiemin Li, and Yao Jiang 0003
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- 2023
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28. NTF4 plays a dual role in breast cancer in mammary tumorigenesis and metastatic progression
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Ran Sun, Jin He, Qin Xiang, Yixiao Feng, Yijia Gong, Yijiao Ning, Chaoqun Deng, Kexin Sun, Mingjun Zhang, Zhaobo Cheng, Xin Le, Qi Xiong, Fengsheng Dai, Yongzhong Wu, and Tingxiu Xiang
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Cell Biology ,Molecular Biology ,Applied Microbiology and Biotechnology ,Ecology, Evolution, Behavior and Systematics ,Developmental Biology - Published
- 2023
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29. Torque Ripple Analysis and Model of Symmetrical Six-Phase Fault-Tolerant PMSM
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Yixiao Feng, Yong Liao, Hao Lin, and Xiaoping Wei
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- 2023
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30. Kinematic Calibration of a 2-DOF Over-Constrained Parallel Manipulator Using Force Data
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Shuqing Chen, Yixiao Feng, and Tiemin Li
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- 2023
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31. Treatment of colorectal cancer by anticancer and antibacterial effects of hemiprotonic phenanthrolinephenanthroline + with nanomicelle delivery.
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Yingying Zhang, Zizhen Zhao, Jingli Li, Qinghua Wang, Zhigang Fan, Zhibo Yuan, Yixiao Feng, and Ailing Fu
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COLORECTAL cancer ,ANTINEOPLASTIC agents ,ESCHERICHIA coli ,INHIBITION of cellular proliferation ,CANCER treatment ,CETUXIMAB ,NANOMEDICINE ,MEDICAL polymers - Abstract
Colorectal cancer (CRC) is a common digestive tract tumor worldwide. Specific microorganisms, including Fusobacterium nucleatum (F. nucleatum) and Escherichia coli (E. coli), are abundant in colonic mucosa and can promote the cancer progression and malignancy. Therefore, a therapeutic strategy is proposed to deliver effective drugs to colorectum for both anticancer and antibacteria. Here we used thin-film dispersion method to encapsulate hemiprotonic phenanthroline-phenanthroline + (ph-ph +) into nanomicelle. The results showed that the drug-loading nanomicelle had good dispersion, and the particle size was about 28 nm. In vitro assay indicated that the nanomicelle was active against CRC-related obligate and facultative anaerobes. In human CRC cells, the nanomicelle could effectively inhibit cell proliferation and induce apoptosis. In vivo distribution showed that the nanomicelle could release ph-ph + mainly in the colorectum. In CRC model mice, the nanomicelle significantly reduced tumor number and volume, and decreased the bacteria load and colorectal inflammation. Together, the study identifies that the ph-ph + nanomicelle has the potential to apply in treating CRC, and also suggests that anticancer combined with antimicrobial therapy would be a feasible way for CRC therapy. [ABSTRACT FROM AUTHOR]
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- 2023
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32. Long non-coding RNA (LncRNA) HOTAIR regulates BMP9-induced osteogenic differentiation by targeting the proliferation of mesenchymal stem cells (MSCs)
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Yixiao Feng, Rex C. Haydon, Wei Liu, Zongyue Zeng, Hue H. Luu, Wenwen Zhang, Jiaming Fan, Zhong-Liang Deng, Ruidong Li, Daigui Cao, Zhengjian Yan, Tong-Chuan He, and Yulong Zou
- Subjects
Aging ,Cell ,osteogenic differentiation ,BMP9 ,Cell Line ,Mice ,HOTAIR ,Osteogenesis ,Proliferating Cell Nuclear Antigen ,Growth Differentiation Factor 2 ,medicine ,Animals ,Gene silencing ,mesenchymal stem cell ,Cell Proliferation ,Gene knockdown ,Adipogenesis ,long non-coding RNA ,Chemistry ,Ossification, Heterotopic ,Cell Cycle ,Mesenchymal stem cell ,Cell Differentiation ,Mesenchymal Stem Cells ,X-Ray Microtomography ,Cell Biology ,Cell cycle ,Alkaline Phosphatase ,Long non-coding RNA ,Cell biology ,medicine.anatomical_structure ,Gene Knockdown Techniques ,RNA, Long Noncoding ,Chondrogenesis ,HOX Transcript Antisense RNA ,Research Paper - Abstract
Long non-coding RNAs are important regulators of biological processes, but their roles in the osteogenic differentiation of mesenchymal stem cells (MSCs) remain unclear. Here we investigated the role of murine HOX transcript antisense RNA (mHotair) in BMP9-induced osteogenic differentiation of MSCs using immortalized mouse adipose-derived cells (iMADs). Touchdown quantitative polymerase chain reaction analysis found increased mHotair expression in bones in comparison with most other tissues. Moreover, the level of mHotair in femurs peaked at the age of week-4, a period of fast skeleton development. BMP9 could induce earlier peak expression of mHotair during in vitro iMAD osteogenesis. Silencing mHotair diminished BMP9-induced ALP activity, matrix mineralization, and expression of osteogenic, chondrogenic and adipogenic markers. Cell implantation experiments further confirmed that knockdown of mHotair attenuated BMP9-induced ectopic bone formation and mineralization of iMADs, leading to more undifferentiated cells. Crystal violet staining and cell cycle analysis revealed that silencing of mHotair promoted the proliferation of iMAD cells regardless of BMP9 induction. Moreover, ectopic bone masses developed from mHotair-knockdown iMAD cells exhibited higher expression of PCNA than the control group. Taken together, our results demonstrated that murine mHotair is an important regulator of BMP9-induced MSC osteogenesis by targeting cell cycle and proliferation.
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- 2021
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33. FAMSi: A Synthetic Biology Approach to the Fast Assembly of Multiplex siRNAs for Silencing Gene Expression in Mammalian Cells
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Hao Wang, Na Ni, Alissa F. Li, Linjuan Huang, Jason Strelzow, Di Wu, Jing Zhang, Yixiao Feng, Kai Fu, Changchun Niu, Jiaming Fan, Eric J. Wang, Xi Wang, Qing Liu, Mostafa H. El Dafrawy, Fang He, Michael J. Lee, William Wagstaff, Zongyue Zeng, Xiaoxing Wu, Yongtao Zhang, Russell R. Reid, Meng Zhang, Mikhail Pakvasa, Xia Zhao, Huaxiu Luo, Hua Gan, Jennifer Moriatis Wolf, Benjamin Luu, Kelly Hynes, Alexander J. Li, Tong-Chuan He, Kevin H. Qin, Deyao Shi, and Yukun Mao
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0301 basic medicine ,Small interfering RNA ,Biology ,BMP9/Smad signaling ,03 medical and health sciences ,Synthetic biology ,0302 clinical medicine ,RNA interference ,Drug Discovery ,medicine ,Gene silencing ,Multiplex ,Gene ,multiplex siRNA expression ,mesenchymal stem cells ,Mesenchymal stem cell ,lcsh:RM1-950 ,double-stranded small interfering RNA ,Cell biology ,030104 developmental biology ,medicine.anatomical_structure ,lcsh:Therapeutics. Pharmacology ,030220 oncology & carcinogenesis ,RNAi ,siRNA ,Molecular Medicine ,Original Article ,Bone marrow ,osteoblastic differentiation - Abstract
RNA interference (RNAi) is mediated by an ∼21-nt double-stranded small interfering RNA (siRNA) and shows great promise in delineating gene functions and in developing therapeutics for human diseases. However, effective gene silencing usually requires the delivery of multiple siRNAs for a given gene, which is often technically challenging and time-consuming. In this study, by exploiting the type IIS restriction endonuclease-based synthetic biology methodology, we developed the fast assembly of multiplex siRNAs (FAMSi) system. In our proof-of-concept experiments, we demonstrated that multiple fragments containing three, four, or five siRNA sites targeting common Smad4 and/or BMPR-specific Smad1, Smad5, and Smad8 required for BMP9 signaling could be assembled efficiently. The constructed multiplex siRNAs effectively knocked down the expression of Smad4 and/or Smad1, Smad5, and Smad8 in mesenchymal stem cells (MSCs), and they inhibited all aspects of BMP9-induced osteogenic differentiation in bone marrow MSCs (BMSCs), including decreased expression of osteogenic regulators/markers, reduced osteogenic marker alkaline phosphatase (ALP) activity, and diminished in vitro matrix mineralization and in vivo ectopic bone formation. Collectively, we demonstrate that the engineered FAMSi system provides a fast-track platform for assembling multiplexed siRNAs in a single vector, and thus it may be a valuable tool to study gene functions or to develop novel siRNA-based therapeutics., Graphical Abstract, RNA interference shows great promise in delineating gene functions and in developing therapeutics for human diseases. He et al. exploited the type IIS restriction endonuclease-based synthetic biology and developed the fast assembly of multiplex siRNAs (FAMSi) system, which streamlines RNAi-based gene function studies and the development of siRNA-based therapeutics.
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- 2020
34. Highly expressed BMP9/GDF2 in postnatal mouse liver and lungs may account for its pleiotropic effects on stem cell differentiation, angiogenesis, tumor growth and metabolism
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Huiming Ding, Yukun Mao, Zhong-Liang Deng, Wei Huang, Changchun Niu, Hue H. Luu, Bo Zhang, Mikhail Pakvasa, Xiaoxing Wu, Yulong Zou, Michael J. Lee, Fang He, Yongtao Zhang, Yixiao Feng, Daigui Cao, William Wagstaff, Lijuan Yang, Wei Liu, Tong-Chuan He, Jiaming Fan, Zongyue Zeng, Meng Meng Zhang, Huaxiu Luo, Rex C. Haydon, Xi Wang, Jing Zhang, Jennifer Moriatis Wolf, and Bin Liu
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Bone morphogenetic proteins (BMPs) ,0301 basic medicine ,lcsh:QH426-470 ,Angiogenesis ,Neurogenesis ,Cellular differentiation ,Hepatic metabolism ,GDF2 ,Biology ,Pulmonary arterial hypertension ,medicine.disease_cause ,Biochemistry ,Article ,Transcriptome ,03 medical and health sciences ,0302 clinical medicine ,Osteogenic differentiation ,medicine ,BMP9/GDF2 ,Noggin ,Molecular Biology ,Genetics (clinical) ,Tissue homeostasis ,lcsh:R5-920 ,cDNA library ,Cell Biology ,Cell biology ,lcsh:Genetics ,030104 developmental biology ,030220 oncology & carcinogenesis ,Tumorigenesis ,Mesenchymal stem cells ,lcsh:Medicine (General) ,Carcinogenesis - Abstract
Bone morphogenetic protein 9 (BMP9) (or GDF2) was originally identified from fetal mouse liver cDNA libraries. Emerging evidence indicates BMP9 exerts diverse and pleiotropic functions during postnatal development and in maintaining tissue homeostasis. However, the expression landscape of BMP9 signaling during development and/or in adult tissues remains to be analyzed. Here, we conducted a comprehensive analysis of the expression landscape of BMP9 and its signaling mediators in postnatal mice. By analyzing mouse ENCODE transcriptome datasets we found Bmp9 was highly expressed in the liver and detectable in embryonic brain, adult lungs and adult placenta. We next conducted a comprehensive qPCR analysis of RNAs isolated from major mouse tissues/organs at various ages. We found that Bmp9 was highly expressed in the liver and lung tissues of young adult mice, but decreased in older mice. Interestingly, Bmp9 was only expressed at low to modest levels in developing bones. BMP9-associated TGFβ/BMPR type I receptor Alk1 was highly expressed in the adult lungs. Furthermore, the feedback inhibitor Smads Smad6 and Smad7 were widely expressed in mouse postnatal tissues. However, the BMP signaling antagonist noggin was highly expressed in fat and heart in the older age groups, as well as in kidney, liver and lungs in a biphasic fashion. Thus, our findings indicate that the circulating BMP9 produced in liver and lungs may account for its pleiotropic effects on postnatal tissues/organs although possible roles of BMP9 signaling in liver and lungs remain to be fully understood. Keywords: BMP9/GDF2, Bone morphogenetic proteins (BMPs), Hepatic metabolism, Mesenchymal stem cells, Neurogenesis, Osteogenic differentiation, Pulmonary arterial hypertension, Tumorigenesis
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- 2020
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35. Leptin Potentiates BMP9-Induced Osteogenic Differentiation of Mesenchymal Stem Cells Through the Activation of JAK/STAT Signaling
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Michael J. Lee, Zongyue Zeng, Hao Wang, Xi Wang, Mostafa H. El Dafrawy, Aravind Athiviraham, Yukun Mao, Xia Zhao, Kevin H. Qin, Meng Wu, Fang He, Yayi Xia, Huaxiu Luo, Meng Zhang, Na Ni, Bo Zhang, Mikhail Pakvasa, Yixiao Feng, William Wagstaff, Kai Fu, Dayao Shi, Kelly Hynes, Yongtao Zhang, Lijuan Yang, Qing Liu, Changchun Niu, Tong-Chuan He, Jason Strelzow, Huimin Ding, Linjuan Huang, Jing Zhang, Xiaoxing Wu, and Jennifer Moriatis Wolf
- Subjects
Leptin ,0301 basic medicine ,Mice, Nude ,GDF2 ,Biology ,Bone morphogenetic protein ,Bone and Bones ,Cell Line ,Mice ,03 medical and health sciences ,0302 clinical medicine ,Original Research Reports ,Osteogenesis ,Growth Differentiation Factor 2 ,Animals ,Humans ,Progenitor cell ,Bone regeneration ,Janus Kinases ,Adipogenesis ,Leptin receptor ,Mesenchymal stem cell ,Cell Differentiation ,Mesenchymal Stem Cells ,Cell Biology ,Hematology ,Up-Regulation ,Cell biology ,STAT Transcription Factors ,030104 developmental biology ,030217 neurology & neurosurgery ,Signal Transduction ,Developmental Biology - Abstract
Mesenchymal stem cells (MSCs) are multipotent progenitors that have the ability to differentiate into multiple lineages, including bone, cartilage, and fat. We previously demonstrated that the least known bone morphogenetic protein (BMP)9 (also known as growth differentiation factor 2) is one of the potent osteogenic factors that can induce both osteogenic and adipogenic differentiation of MSCs. Nonetheless, the molecular mechanism underlying BMP9 action remains to be fully understood. Leptin is an adipocyte-derived hormone in direct proportion to the amount of body fat, and exerts pleiotropic functions, such as regulating energy metabolism, bone mass, and mineral density. In this study, we investigate the potential effect of leptin signaling on BMP9-induced osteogenic differentiation of MSCs. We found that exogenous leptin potentiated BMP9-induced osteogenic differentiation of MSCs both in vitro and in vivo, while inhibiting BMP9-induced adipogenic differentiation. BMP9 was shown to induce the expression of leptin and leptin receptor in MSCs, while exogenous leptin upregulated BMP9 expression in less differentiated MSCs. Mechanistically, we demonstrated that a blockade of JAK signaling effectively blunted leptin-potentiated osteogenic differentiation induced by BMP9. Taken together, our results strongly suggest that leptin may potentiate BMP9-induced osteogenesis by cross-regulating BMP9 signaling through the JAK/STAT signaling pathway in MSCs. Thus, it is conceivable that a combined use of BMP9 and leptin may be explored as a novel approach to enhancing efficacious bone regeneration and fracture healing.
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- 2020
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36. Differential Responsiveness to BMP9 between Patent and Fused Suture Progenitor Cells from Craniosynostosis Patients
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Shifeng Huang, Dingming Huang, Russell R. Reid, Bo Liu, Yixiao Feng, Bo Huang, Wei Liu, Tong-Chuan He, Linghuan Zhang, and Dongzhe Song
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Male ,Primary Cell Culture ,Osteoclasts ,030230 surgery ,Bone morphogenetic protein ,Bioinformatics ,Craniosynostosis ,Craniosynostoses ,03 medical and health sciences ,0302 clinical medicine ,Suture (anatomy) ,Osteogenesis ,Growth Differentiation Factor 2 ,Humans ,Medicine ,Progenitor cell ,Progenitor ,Osteoblasts ,business.industry ,Calcium-Binding Proteins ,Infant ,Cell Differentiation ,Mesenchymal Stem Cells ,Cranial Sutures ,Plastic Surgery Procedures ,medicine.disease ,HEK293 Cells ,Gene Expression Regulation ,030220 oncology & carcinogenesis ,Surgery ,business - Abstract
Several studies have verified that bone morphogenetic proteins (BMPs) may be involved in the development of craniosynostosis; little attention has been focused on the role of BMP9 in cranial suture biology. The authors investigated the role of BMP9 in suture progenitor cells.The authors isolated and cultured prematurely fused and internal control patent suture progenitor cells from patients with nonsyndromic craniosynostosis. Overexpression of BMP9 was mediated by adenoviral vectors. Osteoblast and osteoclast differentiation-related markers were evaluated by staining techniques and touchdown quantitative polymerase chain reaction analysis. In vivo analysis of BMP9-induced suture progenitor cell osteogenesis was performed in an ectopic bone formation model.The authors demonstrated that the prematurely fused sutures have a higher endogenous expression of the osteogenic differentiation-related genes than patent sutures, whereas the same pattern of gene expression exists between fused and patent suture progenitor cells. Importantly, both patent and fused suture progenitor cells undergo osteogenic differentiation and express multiple lineage regulators and NELL-1 on BMP9 stimulation, whereas fused suture progenitor cells have a higher basal osteogenic potential than patent suture progenitor cells. BMP9 regulates the expression of osteoclast differentiation-related genes in suture progenitor cells. Forced BMP9 expression enhances the mineralization and maturity of ectopic bone formation of suture progenitor cells implanted in vivo.The authors' findings suggest that fused suture progenitor cells have elevated osteogenic potential. BMP9 could regulate the expression of multiple osteoblast and osteoclast differentiation-related genes, and NELL-1, in both suture progenitor cells, indicating that BMP9 may play a role in craniosynostosis.
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- 2020
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37. Correction to: ZMYND10, an epigenetically regulated tumor suppressor, exerts tumor-suppressive functions via miR145-5p/NEDD9 axis in breast cancer
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Yan Wang, Liangying Dan, Qianqian Li, Lili Li, Lan Zhong, Bianfei Shao, Fang Yu, Sanxiu He, Shaorong Tian, Jin He, Qian Xiao, Thomas C. Putti, Xiaoqian He, Yixiao Feng, Yong Lin, and Tingxiu Xiang
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Genetics ,Molecular Biology ,Genetics (clinical) ,Developmental Biology - Published
- 2022
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38. SmartWatch
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Sameer G. Kulkarni, Yixiao Feng, Nick Duffield, Kadangode K. Ramakrishnan, Laxmi N. Bhuyan, and Sourav Panda
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Smartwatch ,Traffic analysis ,business.product_category ,Network packet ,Network security ,business.industry ,Computer science ,Packet processing ,Real-time computing ,Bandwidth (signal processing) ,Network switch ,business ,Host (network) - Abstract
Despite advances in network security, attacks targeting mission critical systems and applications remain a significant problem for network and datacenter providers. Existing telemetry platforms detect volumetric attacks at terabit scales using approximation techniques and coarse grain analysis. However, the prevalence of low and slow attacks that require very little bandwidth, makes flow-state tracking critical to overall attack mitigation. Traffic queries deployed on network switches are often limited by hardware constraints, preventing them from carrying out flow tracking features required to detect stealthy attacks. Such attacks can go undetected in the midst of high traffic volumes. We design SmartWatch, a novel flow state tracking and flow logging system at line rate, using SmartNICs to optimize performance and simultaneously detect a number of stealthy attacks. SmartWatch leverages advances in switch based network telemetry platforms to process the bulk of the traffic and only forward suspicious traffic subsets to the SmartNIC. The programmable network switches perform coarse-grained traffic analysis while the SmartNIC conducts the finer-grained analysis which involves additional processing of the packet as a 'bump-in-the-wire'. A control loop between the SmartNIC and programmable switch tunes the queries performed in the switch to direct the most appropriate traffic subset to the SmartNIC. SmartWatch's cooperative monitoring approach yields 2.39 times better detection rate compared to existing platforms deployed on programmable switches. SmartWatch can detect covert timing channels and perform website fingerprinting more efficiently compared to standalone programmable switch solutions, relieving switch memory and control-plane processor resources. Compared to host-based approaches, SmartWatch can reduce the packet processing latency by 72.32%.
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- 2021
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39. A reverse transcriptase-mediated ribosomal RNA depletion (RTR2D) strategy for the cost-effective construction of RNA sequencing libraries
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Yixiao Feng, Hue H. Luu, Bo Zhang, Fang He, Mikhail Pakvasa, Zongyue Zeng, Rex C. Haydon, Xi Wang, Yongtao Zhang, Jiaming Fan, Michael J. Lee, Ailong Huang, Alexander J. Li, Meng Zhang, Lijuan Yang, Jennifer Moriatis Wolf, Xiaoxing Wu, Bo Huang, Huiming Ding, Meng Wu, Yukun Mao, William Wagstaff, Bin Liu, Changchun Niu, Tong-Chuan He, Xia Zhao, Huaxiu Luo, and Jing Zhang
- Subjects
0301 basic medicine ,rRNA removal ,RNA-Seq ,Computational biology ,Biology ,DNA sequencing ,Article ,Transcriptome ,03 medical and health sciences ,0302 clinical medicine ,Transcriptome profiling ,lcsh:Science (General) ,ComputingMethodologies_COMPUTERGRAPHICS ,Ribosomal RNAs ,lcsh:R5-920 ,Messenger RNA ,Multidisciplinary ,RNA ,Reverse transcription ,Ribosomal RNA ,Reverse transcriptase ,030104 developmental biology ,030220 oncology & carcinogenesis ,Next-generation sequencing ,RNA-seq ,lcsh:Medicine (General) ,Whole transcriptome analysis ,lcsh:Q1-390 - Abstract
Graphical abstract, RNA sequencing (RNA-seq)-based whole transcriptome analysis (WTA) using ever-evolving next-generation sequencing technologies has become a primary tool for coding and/or noncoding transcriptome profiling. As WTA requires RNA-seq data for both coding and noncoding RNAs, one key step for obtaining high-quality RNA-seq data is to remove ribosomal RNAs, which can be accomplished by using various commercial kits. Nonetheless, an ideal rRNA removal method should be efficient, user-friendly and cost-effective so it can be adapted for homemade RNA-seq library construction. Here, we developed a novel reverse transcriptase-mediated ribosomal RNA depletion (RTR2D) method. We demonstrated that RTR2D was simple and efficient, and depleted human or mouse rRNAs with high specificity without affecting coding and noncoding transcripts. RNA-seq data analysis indicated that RTR2D yielded highly correlative transcriptome landscape with that of NEBNext rRNA Depletion Kit at both mRNA and lncRNA levels. In a proof-of-principle study, we found that RNA-seq dataset from RTR2D-depleted rRNA samples identified more differentially expressed mRNAs and lncRNAs regulated by Nutlin3A in human osteosarcoma cells than that from NEBNext rRNA Depletion samples, suggesting that RTR2D may have lower off-target depletion of non-rRNA transcripts. Collectively, our results have demonstrated that the RTR2D methodology should be a valuable tool for rRNA depletion.
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- 2020
40. Stem cell therapy for chronic skin wounds in the era of personalized medicine: From bench to bedside
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Yi Shen, Wei Liu, Yixiao Feng, Alissa N. Li, Jennifer Moriatis Wolf, Zhenyu Ye, Elliot S. Bishop, Russell R. Reid, Tong-Chuan He, Alison Deng, Mingyang Li, Scott Du, Ling Zhao, Lewis L. Shi, Rex C. Haydon, Michael J. Lee, Daigui Cao, Aravind Athiviraham, Ofir Hagag, Guillermo A. Ameer, Di Wu, Elam Coalson, Mia Spezia, Winny Liu, Alexander J. Li, and Bo Liu
- Subjects
0301 basic medicine ,medicine.medical_specialty ,lcsh:QH426-470 ,Skin wound ,medicine.medical_treatment ,Wound healing ,Stem cells ,Biochemistry ,Article ,03 medical and health sciences ,Wound care ,0302 clinical medicine ,Medicine ,Intensive care medicine ,Molecular Biology ,Genetics (clinical) ,Chronic wounds ,Skin ,lcsh:R5-920 ,integumentary system ,business.industry ,Cell Biology ,Stem-cell therapy ,Chronic inflammation ,Personalized medicine ,Bench to bedside ,3. Good health ,Clinical trial ,lcsh:Genetics ,030104 developmental biology ,030220 oncology & carcinogenesis ,Stem cell ,lcsh:Medicine (General) ,business ,Growth factors - Abstract
With the significant financial burden of chronic cutaneous wounds on the healthcare system, not to the personal burden mention on those individuals afflicted, it has become increasingly essential to improve our clinical treatments. This requires the translation of the most recent benchtop approaches to clinical wound repair as our current treatment modalities have proven insufficient. The most promising potential treatment options rely on stem cell-based therapies. Stem cell proliferation and signaling play crucial roles in every phase of the wound healing process and chronic wounds are often associated with impaired stem cell function. Clinical approaches involving stem cells could thus be utilized in some cases to improve a body's inhibited healing capacity. We aim to present the laboratory research behind the mechanisms and effects of this technology as well as current clinical trials which showcase their therapeutic potential. Given the current problems and complications presented by chronic wounds, we hope to show that developing the clinical applications of stem cell therapies is the rational next step in improving wound care. Keywords: Chronic inflammation, Chronic wounds, Growth factors, Personalized medicine, Skin, Stem cells, Wound healing
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- 2019
41. The wonders of BMP9: From mesenchymal stem cell differentiation, angiogenesis, neurogenesis, tumorigenesis, and metabolism to regenerative medicine
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Hue H. Luu, Guillermo A. Ameer, Aravind Athiviraham, Jennifer Moriatis Wolf, Hector Castillo, Russell R. Reid, Elam Coalson, Alex Alverdy, Sami Mostafa, Scott Du, Jason Strelzow, Elliott Bishop, Sherwin S. W. Ho, Alex Li, Yixiao Feng, Mingyang Li, Tong-Chuan He, Di Wu, Jiaming Fan, Winny Liu, Kelly Hynes, Alison Deng, Mikhail Pakvasa, Rex C. Haydon, Ofir Hagag, Michael J. Lee, Mia Spezia, Allen Zhu, and Alissa N. Li
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0301 basic medicine ,Bone morphogenetic proteins (BMPs) ,Angiogenesis ,Cellular differentiation ,Mesenchymal stem cells (MSCs) ,Biology ,Bone morphogenetic protein ,Biochemistry ,Regenerative medicine ,Article ,03 medical and health sciences ,0302 clinical medicine ,Osteogenesis ,BMP9/GDF2 ,Molecular Biology ,Genetics (clinical) ,Adipogenesis ,Neurogenesis ,Cell Biology ,3. Good health ,Cell biology ,030104 developmental biology ,Metabolism ,030220 oncology & carcinogenesis ,Tumorigenesis ,Mesenchymal stem cell differentiation ,Signal transduction - Abstract
Although bone morphogenetic proteins (BMPs) initially showed effective induction of ectopic bone growth in muscle, it has since been determined that these proteins, as members of the TGF-β superfamily, play a diverse and critical array of biological roles. These roles include regulating skeletal and bone formation, angiogenesis, and development and homeostasis of multiple organ systems. Disruptions of the members of the TGF-β/BMP superfamily result in severe skeletal and extra-skeletal irregularities, suggesting high therapeutic potential from understanding this family of BMP proteins. Although it was once one of the least characterized BMPs, BMP9 has revealed itself to have the highest osteogenic potential across numerous experiments both in vitro and in vivo, with recent studies suggesting that the exceptional potency of BMP9 may result from unique signaling pathways that differentiate it from other BMPs. The effectiveness of BMP9 in inducing bone formation was recently revealed in promising experiments that demonstrated efficacy in the repair of critical sized cranial defects as well as compatibility with bone-inducing bio-implants, revealing the great translational promise of BMP9. Furthermore, emerging evidence indicates that, besides its osteogenic activity, BMP9 exerts a broad range of biological functions, including stem cell differentiation, angiogenesis, neurogenesis, tumorigenesis, and metabolism. This review aims to summarize our current understanding of BMP9 across biology and the body.
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- 2019
42. Long noncoding RNA LINC01089 predicts clinical prognosis and inhibits cell proliferation and invasion through the Wnt/β-catenin signaling pathway in breast cancer
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Guosheng Ren, Hongfan Yuan, Yi Qin, Yixiao Feng, Tingxiu Xiang, Yunhai Li, and Beilei Zeng
- Subjects
0301 basic medicine ,Cell cycle checkpoint ,tumor suppressor ,Flow cytometry ,03 medical and health sciences ,breast cancer ,0302 clinical medicine ,medicine ,Pharmacology (medical) ,long noncoding RNA ,Survival analysis ,Original Research ,biology ,medicine.diagnostic_test ,Cell growth ,the canonical Wnt signaling ,Wnt signaling pathway ,Cell cycle ,Long non-coding RNA ,prognostic indicator ,030104 developmental biology ,Oncology ,030220 oncology & carcinogenesis ,biology.protein ,Cancer research ,Cyclin-dependent kinase 6 - Abstract
Background Recently, emerging evidence has indicated crucial roles for long noncoding RNAs (lncRNAs) in breast cancer (BC) development and progression. Our study aimed to investigate the clinical significance of LINC01089 in patients with BC and to determine its biological functions and underlying molecular mechanisms. Materials and methods Correlations between LINC01089 expression and the clinicopathological characteristics of BC patients were assessed using chi-square tests. The Kaplan-Meier method was used to produce survival curves. The clinical risk characteristics associated with the overall survival and recurrence-free survival of patients with BC were estimated using univariate and multivariate Cox regression analyses. Several methods were used to determine the expression profile, biological functions and underlying mechanisms of LINC01089 in BC, including cell proliferation assays, colony formation assays, flow cytometry, transwell assays, wound healing assays, quantitative real-time polymerase chain reaction and Western blotting. Results LINC01089 was downregulated in BC tissues and cell lines. Low LINC01089 expression was significantly correlated with age (P=0.026), lymph node metastasis (P=0.003), and poor prognosis of patients with BC. According to the multivariate Cox regression analysis results, LINC01089 was an independent prognostic indicator of overall survival (P=0.032) and recurrence-free survival (P=0.014). Functional studies revealed significant decreases in the proliferation, migration, and invasion of tumor cells overexpressing LINC01089, and EGF could reverse above effects of LINC01089 on BC cells. Additionally, increased LINC01089 expression promoted apoptosis and cell cycle arrest at G0/G1 phase, accompanied by decreased expression of the key cell cycle regulators CDK4 and CDK6. Loss-of-function assays confirmed partial results. Mechanistically, LINC01089 blocked the Wnt/β-catenin pathway and the expression of downstream target genes by inhibiting β-catenin expression at the transcriptional level. Conclusion Based on our results, LINC01089 functions as a tumor suppressor and potentially represents a novel prognostic indicator and therapeutic target in BC., Video abstract Point your SmartPhone at the code above. If you have a QR code reader the video abstract will appear. Or use: https://youtu.be/v9IJgKoCzJM
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- 2019
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43. Transcriptomic landscape regulated by the 14 types of bone morphogenetic proteins (BMPs) in lineage commitment and differentiation of mesenchymal stem cells (MSCs)
- Author
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Qing Luo, Tong-Chuan He, Jennifer Moriatis Wolf, Bin Liu, Rex C. Haydon, Xi Wang, Daigui Cao, Ling Zhao, Michael J. Lee, Bo Zhang, William Wagstaff, Linghuan Zhang, Quan Kang, Yixiao Feng, Lijuan Yang, Zhou Fu, Bo Huang, Yi Shu, Yan Lei, Zhenyu Ye, Russell R. Reid, Hue H. Luu, Zongyue Zeng, and Xian Feng Chen
- Subjects
0301 basic medicine ,Bone morphogenetic proteins (BMPs) ,animal structures ,Notch signaling pathway ,Biology ,Bone morphogenetic protein ,Biochemistry ,Bone morphogenetic protein 2 ,Article ,03 medical and health sciences ,Smad signaling ,0302 clinical medicine ,Progenitor cell ,MAP kinase signaling ,Molecular Biology ,Genetics (clinical) ,PI3K/AKT/mTOR pathway ,Notch signaling ,Mesenchymal stem cell ,Wnt signaling pathway ,Cell Biology ,Wnt signaling ,Cell biology ,TGFβ superfamily ,Bone morphogenetic protein 7 ,030104 developmental biology ,030220 oncology & carcinogenesis ,embryonic structures ,Mesenchymal stem cells - Abstract
Mesenchymal stem cells (MSCs) are ubiquitously-existing multipotent progenitors that can self-renew and differentiate into multiple lineages including osteocytes, chondrocytes, adipocytes, tenocytes and myocytes. MSCs represent one of the most commonly-used adult progenitors and serve as excellent progenitor cell models for investigating lineage-specific differentiation regulated by various cellular signaling pathways, such as bone morphogenetic proteins (BMPs). As members of TGFβ superfamily, BMPs play diverse and important roles in development and adult tissues. At least 14 BMPs have been identified in mammals. Different BMPs exert distinct but overlapping biological functions. Through a comprehensive analysis of 14 BMPs in MSCs, we demonstrated that BMP9 is one of the most potent BMPs in inducing osteogenic differentiation of MSCs. Nonetheless, a global mechanistic view of BMP signaling in regulating the proliferation and differentiation of MSCs remains to be fully elucidated. Here, we conducted a comprehensive transcriptomic profiling in the MSCs stimulated by 14 types of BMPs. Hierarchical clustering analysis classifies 14 BMPs into three subclusters: an osteo/chondrogenic/adipogenic cluster, a tenogenic cluster, and BMP3 cluster. We also demonstrate that six BMPs (e.g., BMP2, BMP3, BMP4, BMP7, BMP8, and BMP9) can induce I-Smads effectively, while BMP2, BMP3, BMP4, BMP7, and BMP11 up-regulate Smad-independent MAP kinase pathway. Furthermore, we show that many BMPs can upregulate the expression of the signal mediators of Wnt, Notch and PI3K/AKT/mTOR pathways. While the reported transcriptomic changes need to be further validated, our expression profiling represents the first-of-its-kind to interrogate a comprehensive transcriptomic landscape regulated by the 14 types of BMPs in MSCs.
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- 2019
44. A pH-Triggered, Self-Assembled, and Bioprintable Hybrid Hydrogel Scaffold for Mesenchymal Stem Cell Based Bone Tissue Engineering
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Bo Liu, Jennifer Moriatis Wolf, Michael J. Lee, Yixiao Feng, Chen Zhao, Aravind Athiviraham, Juan J. de Pablo, Lijuan Yang, Daigui Cao, Zhengyu Dai, Bo Huang, Matthew Tirrell, Yan Lei, Yi Shen, Wenping Luo, Zongyue Zeng, Wei Huang, Wei Liu, Ling Zhao, Bo Zhang, Zhenyu Ye, Ana Losada de la Lastra, Shifeng Huang, Xi Wang, Monirosadat Sadati, Tong-Chuan He, Russell R. Reid, Xian Chen, Linghuan Zhang, and Nader Taheri Qazvini
- Subjects
Calcium Phosphates ,Scaffold ,Bone Regeneration ,Materials science ,Biocompatibility ,Biocompatible Materials ,02 engineering and technology ,BMP9 ,Bone tissue ,Bone and Bones ,Bone resorption ,Cell Line ,03 medical and health sciences ,Osteogenesis ,Cell Adhesion ,medicine ,Humans ,General Materials Science ,bone tissue engineering ,Cell adhesion ,hydrogels ,Cell Proliferation ,030304 developmental biology ,mesenchymal stem cells ,Chitosan ,0303 health sciences ,Tissue Engineering ,Tissue Scaffolds ,Regeneration (biology) ,Mesenchymal stem cell ,amorphous calcium phosphate (ACP) ,Bioprinting ,Cell Differentiation ,Hydrogen-Ion Concentration ,021001 nanoscience & nanotechnology ,Cell biology ,Growth Differentiation Factors ,medicine.anatomical_structure ,carboxymethyl chitosan (CMCh) ,Self-healing hydrogels ,Nanoparticles ,0210 nano-technology ,Research Article - Abstract
Effective bone tissue engineering can restore bone and skeletal functions that are impaired by traumas and/or certain medical conditions. Bone is a complex tissue and functions through orchestrated interactions between cells, biomechanical forces, and biofactors. To identify ideal scaffold materials for effective mesenchymal stem cell (MSC)-based bone tissue regeneration, here we develop and characterize a composite nanoparticle hydrogel by combining carboxymethyl chitosan (CMCh) and amorphous calcium phosphate (ACP) (designated as CMCh-ACP hydrogel). We demonstrate that the CMCh-ACP hydrogel is readily prepared by incorporating glucono δ-lactone (GDL) into an aqueous dispersion or rehydrating the acidic freeze-dried nanoparticles in a pH-triggered controlled-assembly fashion. The CMCh-ACP hydrogel exhibits excellent biocompatibility and effectively supports MSC proliferation and cell adhesion. Moreover, while augmenting BMP9-induced osteogenic differentiation, the CMCh-ACP hydrogel itself is osteoinductive and induces the expression of osteoblastic regulators and bone markers in MSCs in vitro. The CMCh-ACP scaffold markedly enhances the efficiency and maturity of BMP9-induced bone formation in vivo, while suppressing bone resorption occurred in long-term ectopic osteogenesis. Thus, these results suggest that the pH-responsive self-assembled CMCh-ACP injectable and bioprintable hydrogel may be further exploited as a novel scaffold for osteoprogenitor-cell-based bone tissue regeneration.
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- 2019
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45. Long transcripts minus touchdown qPCR (LTMT-qPCR): a simplified and convenient method for the screening and quantification of microRNA profiles
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Lan Zhou, Yan Liu, Xi Wang, Qi Peng, Zongyue Zeng, Xuehua Kong, Yixiao Feng, Shixian Zhou, and Xiaorong Yang
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Gene Expression Profiling ,RNA ,Touchdown ,Cell Biology ,MicroRNA Profile ,Computational biology ,Short length ,Biology ,Polymerase Chain Reaction ,Pathology and Forensic Medicine ,MicroRNAs ,HEK293 Cells ,Cell Line, Tumor ,microRNA ,Humans ,Primer (molecular biology) ,Molecular Biology - Abstract
Due to the short length and differences in abundance of microRNAs, microRNA profile screening and quantification is challenging. In this study, we found that size selection magnetic beads could be employed to easily and efficiently remove long RNA transcripts. After removing the long transcripts, the remaining small RNAs could be concentrated and then reverse-transcribed using universal stem-loop primers (USLP), with six randomized nucleotides at the 3' end region. The efficiency of reverse transcription decreased when the number of randomized nucleotides was reduced. In addition, we found that touchdown qPCR improved microRNA profile detection, with lower CT values and better detection efficiency than the regular qPCR protocol, especially for those low-abundance microRNAs. Finally, we incorporated these observations to create a new protocol we named long transcripts minus touchdown qPCR (LTMT-qPCR). We performed a side-by-side comparison of LTMT with USLP and traditional stem-loop primer (TSLP) protocols. We found that LTMT has higher detection efficiency than USLP, especially for the detection of low-abundance microRNAs. Although LTMT was equivalent to TSLP in terms of microRNA profile detection, LTMT is more convenient, user-friendly, and cost-effective. Taken together, the present data indicate that LTMT is a simple, rapid, and user-friendly approach that has higher precision, accuracy, and sensitivity than the previously described methods, making it more suitable for microRNA profile screening and quantification.
- Published
- 2021
46. A SmartNIC-Accelerated Monitoring Platform for In-band Network Telemetry
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Kadangode K. Ramakrishnan, Sameer G. Kulkarni, Nick Duffield, Sourav Panda, and Yixiao Feng
- Subjects
Computer science ,Network packet ,05 social sciences ,Real-time computing ,Packet processing ,MathematicsofComputing_NUMERICALANALYSIS ,050801 communication & media studies ,020206 networking & telecommunications ,02 engineering and technology ,Network monitoring ,Metadata ,0508 media and communications ,Network element ,Telemetry ,ComputingMethodologies_SYMBOLICANDALGEBRAICMANIPULATION ,0202 electrical engineering, electronic engineering, information engineering ,Forwarding plane - Abstract
Recent developments in In-band Network Telemetry (INT) provide granular monitoring of performance and load on network elements by collecting information in the data plane. INT enables traffic sources to embed telemetry instructions in data packets, avoiding separate probing or infrequent management-based monitoring. INT sink nodes track and collect metrics by retrieving INT metadata instructions appended by different sources of INT information. However, tracking the INT state in packets arriving at the sink is both compute intensive (requiring complex operations on each packet), and challenging for the standard P4 match-action packet processing pipeline to maintain line-rate. We propose a network telemetry platform in which the INT sink is implemented using distinct (C-based) algorithms on a SmartNIC in the monitoring host, complementing the P4 packet processing pipeline. This design accelerates packet processing and handles complex INT-related operations more efficiently than P4 match-action processing alone. While the P4 pipeline parses INT headers, a general-purpose Micro-C algorithms performs complex INT tasks (e.g. aggregation, event-detection, notification, etc.). We demonstrate that partitioning of INT processing significantly reduces processing overhead vs. a P4-on1y implementation, providing accurate, timely and almost loss-free event notification.
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- 2020
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47. BMP9-induced osteoblastic differentiation requires functional Notch signaling in mesenchymal stem cells
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Jennifer Moriatis Wolf, Bo Huang, Yixiao Feng, Wei Liu, Tong-Chuan He, Zhengyu Dai, Shifeng Huang, Zongyue Zeng, Gopal Thinakaran, Wenping Luo, Jing Cui, Cheng Gong, Jia Wang, Wenwen Zhang, Hue H. Luu, Shujuan Yan, Alexander J. Li, Russell R. Reid, Liping An, Yi Shu, Xiaojuan Ji, Linghuan Zhang, Junyi Liao, Ruidong Li, Xi Wang, Ailong Huang, Ying Wu, Enyi Huang, Xinyi Yu, Chao Yang, Chen Zhao, Yi Shen, Jiayan Lei, Bo Zhang, Ruyi Zhang, Michael J. Lee, Chengfu Yuan, and Ke Wu
- Subjects
0301 basic medicine ,Cellular differentiation ,Notch signaling pathway ,GDF2 ,Biology ,Bone morphogenetic protein ,Article ,Pathology and Forensic Medicine ,03 medical and health sciences ,0302 clinical medicine ,Osteogenesis ,Growth Differentiation Factor 2 ,Humans ,Progenitor cell ,Molecular Biology ,Receptors, Notch ,Mesenchymal stem cell ,Cell Differentiation ,Mesenchymal Stem Cells ,Cell Biology ,Embryonic stem cell ,Up-Regulation ,Cell biology ,Growth Differentiation Factors ,HEK293 Cells ,030104 developmental biology ,030220 oncology & carcinogenesis ,Signal transduction ,Signal Transduction - Abstract
Mesenchymal stem cells (MSCs) are multipotent progenitors that can differentiate into multiple lineages including osteoblastic lineage. Osteogenic differentiation of MSCs is a cascade that recapitulates most, if not all, of the molecular events occurring during embryonic skeletal development, which is regulated by numerous signaling pathways including bone morphogenetic proteins (BMPs). Through a comprehensive analysis of the osteogenic activity, we previously demonstrated that BMP9 is the most potent BMP for inducing bone formation from MSCs both in vitro and in vivo. However, as one of the least studied BMPs, the essential mediators of BMP9-induced osteogenic signaling remain elusive. Here we show that BMP9-induced osteogenic signaling in MSCs requires intact Notch signaling. While the expression of Notch receptors and ligands are readily detectable in MSCs, Notch inhibitor and dominant-negative Notch1 effectively inhibit BMP9-induced osteogenic differentiation in vitro and ectopic bone formation in vivo. Genetic disruption of Notch pathway severely impairs BMP9-induced osteogenic differentiation and ectopic bone formation from MSCs. Furthermore, while BMP9-induced expression of early-responsive genes is not affected by defective Notch signaling, BMP9 upregulates the expression of Notch receptors and ligands at the intermediate stage of osteogenic differentiation. Taken together, these results demonstrate that Notch signaling may play an essential role in coordinating BMP9-induced osteogenic differentiation of MSCs., Bone morphogenetic protein (BMP) 9 is a potent inducer of osteogenic differentiation from mesenchymal stem cells, but the mediators of BMP9-induced osteogenesis remain elusive. Here, the authors show that inhibition of Notch1 signaling effectively diminishes BMP9-induced osteogenesis. Genetic disruption of Notch pathway severely impairs BMP9-induced bone formation. Thus, these results demonstrate that Notch signaling may play an essential role in coordinating osteogenic differentiation.
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- 2019
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48. DNA methylation downregulated ZDHHC1 suppresses tumor growth by altering cellular metabolism and inducing oxidative/ER stress-mediated apoptosis and pyroptosis
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Jun Tang, Sanxiu He, Xin Le, Tingxiu Xiang, Qian Tao, Yixiao Feng, Guosheng Ren, Yong Lin, Shaorong Tian, Zhu Qiu, Qin Xiang, Junhao Mu, Weiyan Peng, and Ailong Huang
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0301 basic medicine ,Proteomics ,zinc finger protein ,Tumor suppressor gene ,Bisulfite sequencing ,Medicine (miscellaneous) ,Down-Regulation ,Mice, Nude ,Apoptosis ,ZDHHC1 ,03 medical and health sciences ,Mice ,0302 clinical medicine ,Cell Movement ,Cell Line, Tumor ,Pyroptosis ,Animals ,Humans ,Epigenetics ,Pharmacology, Toxicology and Pharmaceutics (miscellaneous) ,Cell Proliferation ,Chemistry ,Tumor Suppressor Proteins ,Methylation ,Cell Cycle Checkpoints ,DNA Methylation ,CYGB ,Endoplasmic Reticulum Stress ,Cell biology ,Oxidative Stress ,030104 developmental biology ,Glucose ,A549 Cells ,030220 oncology & carcinogenesis ,DNA methylation ,Cancer cell ,Unfolded protein response ,MCF-7 Cells ,ER stress ,Acyltransferases ,Signal Transduction ,Research Paper - Abstract
Cancer progression is an intricate biological process profiled by not only unscheduled proliferation, but also altered metabolism mechanisms. In this article, we introduced a novel tumor suppressor gene (TSG), Zinc Finger DHHC-Type Containing 1 (ZDHHC1, also known as ZNF377), frequently silenced due to epigenetic modification among various cancers, which exerts significant anti-tumor effects through metabolic regulation. Methods: Quantitative reversed-transcription PCR (qRT-PCR), reverse transcription PCR (RT-PCR) and Western blot were employed to demonstrate transcriptional and protein levels of targeted regulators. Methylation of ZDHHC1 promoter was detected by bisulfite genomic sequencing (BGS) and methylation specific PCR (MSP). Proteomics were analyzed by isobaric tags for relative and absolute quantitation (iTRAQ) and gas chromatography-mass spectrometry (GC-MS) were utilized for metabolomics analysis. Cellular functions were examined via corresponding approaches. Nude mice were used for xenograft tumor models. Indirect immunofluorescence staining was utilized to obtain precise location and expression of target proteins. Oxidative and ER stress indicators were detected using specific kits. Results: We found that ZDHHC1 expression was frequently silenced in multiple tumor cells and specimens due to methylation. Restoration of ZDHHC1 expression can curb cancer cell progression via stimulating apoptosis and cell cycle arrest, repressing metastasis, and reversing EMT transition and cell stemness. ZDHHC1's salient anti-tumor abilities were recognized in vivo as well. Metabolomic and proteomic analyses predicted inhibitory role of ZDHHC1 in glucose metabolism pathways in a CYGB-dependent manner, and in pentose phosphate pathway (PPP), which was validated by examining altered key factors. Moreover, we unraveled that ZDHHC1 dedicates to the increment of oxidative stress and endoplasmic reticulum (ER) stress to promote pyroptosis for anticancer purposes. Conclusion: Our study for the first time indicates ZDHHC1 is a potential tumor-suppressor frequently silenced due to promoter methylation, capable of negatively regulating metabolisms of tumor cells while stimulating oxidative stress and ER stress to expedite cell death through induction of pyroptosis and apoptosis, which can be exploited for development of new cancer prevention and therapies.
- Published
- 2020
49. A Simplified System to Express Circularized Inhibitors of miRNA for Stable and Potent Suppression of miRNA Functions
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Shifeng Huang, Zongyue Zeng, Bo Liu, Jennifer Moriatis Wolf, Bo Huang, Michael J. Lee, Xian Chen, Wei Liu, Lijuan Yang, Ke Wu, Linghuan Zhang, Zhengyu Dai, Hue H. Luu, Yixiao Feng, Yi Shen, Daigui Cao, Chengfu Yuan, Yan Lei, Yi Shu, Tong-Chuan He, Xi Wang, Zhenyu Ye, Wenping Luo, Russell R. Reid, Ling Zhao, Bo Zhang, and Xiaojuan Ji
- Subjects
0301 basic medicine ,Untranslated region ,miRNA sponge ,Article ,noncoding RNA ,03 medical and health sciences ,Circular RNA ,Transcription (biology) ,Drug Discovery ,microRNA ,competing endogenous RNA ,miRNA ,miRNA inhibitor ,oncomiR ,Competing endogenous RNA ,Chemistry ,lcsh:RM1-950 ,RNA ,circular RNA ,Oncomir ,Non-coding RNA ,Cell biology ,miRNA decoy ,030104 developmental biology ,lcsh:Therapeutics. Pharmacology ,Molecular Medicine - Abstract
MicroRNAs (miRNAs) are an evolutionarily conserved class of small regulatory noncoding RNAs, binding to complementary target mRNAs and resulting in mRNA translational inhibition or degradation, and they play an important role in regulating many aspects of physiologic and pathologic processes in mammalian cells. Thus, efficient manipulations of miRNA functions may be exploited as promising therapeutics for human diseases. Two commonly used strategies to inhibit miRNA functions include direct transfection of chemically synthesized miRNA inhibitors and delivery of a gene vector that instructs intracellular transcription of miRNA inhibitors. While most miRNA inhibitors are based on antisense molecules to bind and sequester miRNAs from their natural targets, it is challenging to achieve effective and stable miRNA inhibition. Here we develop a user-friendly system to express circular inhibitors of miRNA (CimiRs) by exploiting the noncanonical head-to-tail backsplicing mechanism for generating endogenous circular RNA sponges. In our proof-of-principle experiments, we demonstrate that the circular forms of the hsa-miR223-binding site of human β-arrestin1 (ARRB1) 3′ UTR sponge RNA (BUTR), the bulged anti-miR223 (cirBulg223) and bulged anti-miR21 (cirBulg21), exhibit more potent suppression of miRNA functions than their linear counterparts. Therefore, the engineered CimiR expression system should be a valuable tool to target miRNAs for basic and translational research. Keywords: microRNA, miRNA, miRNA sponge, circular RNA, miRNA inhibitor, competing endogenous RNA, miRNA decoy, noncoding RNA, oncomiR
- Published
- 2018
50. Monensin inhibits cell proliferation and tumor growth of chemo-resistant pancreatic cancer cells by targeting the EGFR signaling pathway
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Bo Liu, Zhenyu Ye, Yi Shen, Daigui Cao, Rex C. Haydon, Xi Wang, Shifeng Huang, Yan Lei, Chao Ma, Zhonglin Zhang, Chengfu Yuan, Bo Huang, Xin Wang, Wei Liu, Tingting Wu, Xingye Wu, Hue H. Luu, Xubao Liu, Xian Chen, Lijuan Yang, Shengli Tang, Linghuan Zhang, Tong-Chuan He, Yixiao Feng, Ling Zhao, Cheng Gong, Bo Zhang, Bing Peng, Zongyue Zeng, and Wenping Luo
- Subjects
0301 basic medicine ,Male ,lcsh:Medicine ,Apoptosis ,Deoxycytidine ,chemistry.chemical_compound ,Mice ,0302 clinical medicine ,Cell Movement ,Medicine ,lcsh:Science ,EGFR inhibitors ,Multidisciplinary ,Monensin ,Cell Cycle ,Drug Synergism ,3. Good health ,ErbB Receptors ,030220 oncology & carcinogenesis ,Erlotinib ,medicine.drug ,Carcinoma, Pancreatic Ductal ,Signal Transduction ,Programmed cell death ,Mice, Nude ,Antineoplastic Agents ,Article ,03 medical and health sciences ,Erlotinib Hydrochloride ,Pancreatic cancer ,Cell Line, Tumor ,Animals ,Humans ,Pancreas ,Protein Kinase Inhibitors ,Cell Proliferation ,business.industry ,Cell growth ,lcsh:R ,medicine.disease ,Xenograft Model Antitumor Assays ,Gemcitabine ,Pancreatic Neoplasms ,030104 developmental biology ,chemistry ,Drug Resistance, Neoplasm ,Cancer research ,lcsh:Q ,business - Abstract
Pancreatic ductal adenocarcinoma (PDAC) is one of the most deadly malignancies with in vivo study shows that monensin blunts PDAC xenograft tumor growth by suppressing cell proliferation via targeting EGFR pathway. Therefore, our findings demonstrate that monensin can be repurposed as an effective anti-pancreatic cancer drug even though more investigations are needed to validate its safety and anticancer efficacy in pre-clinical and clinical models.
- Published
- 2018
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