92 results on '"Ding XB"'
Search Results
2. Scheduling local and express trains in suburban rail transit lines: Mixed–integer nonlinear programming and adaptive genetic algorithm
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Xiaobing Ding, Yantong Li, Andrea D'Ariano, Marcella Samà, Lianhua Tang, Xingfang Xu, Tang, L., D'Ariano, A., Xu, X., Li, Y., Ding, X., Samà, Marcella, Tang, Lh, D'Ariano, A, Xu, Xf, Li, Yt, Ding, Xb, and Sama, M
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Mathematical optimization ,Adaptive genetic algorithm (A–GA) ,Suburban rail transit (SRT) ,General Computer Science ,Linear programming ,Computer science ,Mixed–integer nonlinear programming (MINLP) ,Passenger travel time (PTT) ,Traditional (all) stopping mode (TSM) ,Management Science and Operations Research ,Solver ,Nonlinear programming ,Scheduling (computing) ,Train overtaking ,Express/local stopping mode (ELM) ,Modeling and Simulation ,Overtaking ,Expre ,Train timetabling ,Genetic algorithm ,Train ,Sensitivity (control systems) ,local stopping mode (ELM) ,Adaptive genetic algorithm (A-GA) ,Mixed-integer nonlinear programming (MINLP) - Abstract
We investigate the train timetabling problem in suburban rail transit lines by considering (1) the traditional stopping mode (TSM), in which all trains stop at each station, and (2) the express/local stopping mode (ELM), in which express trains can skip certain low–demand stations. We first propose two mixed–integer linear programming models for the train timetabling problem under the TSM with and without capacity constraints. Next, we develop two mixed–integer nonlinear programming models under the ELM with and without “overtaking”; thus, a total of four optimization models are proposed. The objective is to minimize the passenger travel time (PTT). Owing to the NP–hardness of the studied problem, we propose an adaptive genetic algorithm (A–GA) that can efficiently solve the four proposed models. The A–GA is customized to solve the train timetabling problem with train capacity, overtaking, and other operational constraints, reducing the PTT. To evaluate the performance of the proposed algorithm, we conduct numerical experiments on 60 randomly generated realistic instances and a real–world case study based on Shanghai Metro Line 16. The computational results for the realistic instances indicate that our A–GA can obtain near–optimal solutions with significantly less computation time than an established commercial solver. The computational results from the real-world case study quantify the benefits of considering the combination of the ELM and overtaking strategies in train timetabling. Furthermore, we perform a sensitivity analysis on key parameters of our mathematical formulations. The results provide insights to railway managers on how to set key parameters when applying the proposed formulations and solution methodology in practice.
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- 2021
3. Bereaved parents' perceptions of memory making: a qualitative meta-synthesis.
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Xu DD, Zhang GX, Ding XB, Ma J, Suo YX, Peng YY, Zeng JL, Liu M, Hou RT, Li J, and Hu F
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- Child, Humans, Grief, Parents, Qualitative Research, Bereavement
- Abstract
Objective: This study aims to investigate the experiences of parents who have experienced bereavement in their efforts to preserve memories of their deceased child., Methods: Employing a qualitative meta-synthesis approach, this study systematically sought relevant qualitative literature by conducting searches across various electronic databases, including PubMed, Embase, CINAHL, PsycINFO, Web of Science, Cochrane Library, and Wiley, up until July 2023., Results: Nine studies are eligible for inclusion and included in the meta-synthesis. Three overarching categories are identified: (1) Affirming the Significance of Memory Making. (2) Best Practices in Memory Making. (3) Barriers to Effective Memory Making., Conclusion: Bereaved parents highly value the act of creating lasting memories, emphasizing its profound significance. While forming these memories, it is imperative to offer family-centered care and honor diverse preferences and needs. It is essential to offer effective support to parents, offering them a range of choices. Furthermore, a more comprehensive examination of memory-making practices is required to better understand their influence on parents' recollections of their deceased child., (© 2024. The Author(s).)
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- 2024
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4. Synthesis of the spiroimine fragment of portimines A and B.
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Ding XB, Wung A, Furkert DP, and Brimble MA
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- Imines, Lactones, Spiro Compounds, Biological Products
- Abstract
Portimines A and B are spirocyclic imine natural products, which display remarkable anticancer, anti-HIV, and antifouling activities. Herein, we report a facile synthesis of the spirocyclic core of portimines A and B. Our strategy utilized a scalable Diels-Alder addition of a 2-bromo-1,3-butadiene to a symmetrical malonate dienophile, coupled with a diastereoselective lactonization of the resulting malonate that enabled differentiation of the two carbonyl groups. This approach overcame issues encountered in previous studies focused on the use of exo selective Diels-Alder reactions, by programming formation of the key stereodiad of the spiroimine fragment into the diastereoselective lactonization event, rather than the cycloaddition step. Elaboration of the key lactone intermediate afforded a functionalized spirolactam fragment as a useful intermediate en route to the portimines. Importantly, a key alcohol intermediate could be resolved by enzymatic resolution, thereby providing an asymmetric route to the spiroimine fragment of portimines A and B.
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- 2023
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5. A transition programme to enhance ICU new graduate nurses' professional identity and intention to remain employed: A pre- and postevaluation.
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Hu F, Ding XB, Zhang RH, Li SY, Cao R, Deng L, Li J, Fu X, Zhu XP, and Chen J
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- Humans, Intention, Preceptorship, Intensive Care Units, Education, Nursing, Graduate
- Abstract
Aims: To investigate the effect of a transition programme including cognitive-behaviour-based preceptorship intervention on ICU new graduate nurses' (NGNs)' professional identity and their intention to remain employed., Design: One-arm pre- and post-test design followed the TREND Statement., Methods: NGNs' professional identity and intention to remain employed were measured at baseline (T1), postintervention (1 month, T2) and 6-month follow-up (T3)., Results: Fifty-three NGNs completed the programme, and their professional identity score significantly increased postintervention [from 111.5 (SD = 16.72) at T1 to 114.2 (SD = 9.12) at T2, p < 0.05], but decreased at T3 [105.8 (SD = 9.44) compared with T1 and T2, p < 0.05]. There was no significant difference in ICU NGNs' intention of remain employed outcomes at three time points (p > 0.05). The transition programme was effective to improve ICU NGNs' professional identity immediately after the intervention, but the increment did not maintain at the 6-month follow-up., (© 2022 The Authors. Nursing Open published by John Wiley & Sons Ltd.)
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- 2023
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6. Co-treatment of betulin and gefitinib is effective against EGFR wild-type/KRAS-mutant non-small cell lung cancer by inducing ferroptosis.
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Yan WY, Cai J, Wang JN, Gong YS, and Ding XB
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- Apoptosis, Cell Line, Tumor, Cell Proliferation, Drug Resistance, Neoplasm genetics, ErbB Receptors metabolism, Gefitinib therapeutic use, Humans, Protein Kinase Inhibitors therapeutic use, Proto-Oncogene Proteins p21(ras) genetics, Reactive Oxygen Species metabolism, Triterpenes, Antineoplastic Agents pharmacology, Carcinoma, Non-Small-Cell Lung drug therapy, Carcinoma, Non-Small-Cell Lung genetics, Carcinoma, Non-Small-Cell Lung pathology, Ferroptosis, Lung Neoplasms drug therapy, Lung Neoplasms genetics, Lung Neoplasms pathology
- Abstract
Clinical trials suggest that non-small-cell lung cancer (NSCLC) patients with KRAS mutations and wild-type EGFR have reduced benefits from gefitinib treatment. Ferroptosis is a new form of cell death that plays an important role in mediating the sensitivity of EGFR-TIKs. Here, we explored the antitumor ability of gefitinib in combination with betulin to overcome drug resistance through ferroptosis in wild-type EGFR/KRAS-mutant NSCLC cells. A549 and H460 cells were treated with gefitinib and betulin, and cell viability, apoptosis, and migration ability were assessed using the CCK-8 assay, flow cytometry, and wound-healing assay, respectively. Several cell death inhibitors were used to study the form of cell death. Ferroptosis-related events were detected by performing reactive oxygen species (ROS) and iron level detection, malondialdehyde (MDA) assay, and glutathione (GSH) assay. EMT-associated proteins and ferroptosis-related proteins were detected by using western blotting. A xenograft model was constructed in vivo to investigate the role of the combination treatment of betulin and gefitinib in NSCLC tumor growth. Gefitinib in combination with betulin exhibited antagonistic effects on cellular viability and induced cell apoptosis. It also induced ROS accumulation, lipid peroxidation, and GSH depletion and induced ferroptosis-related gene expression. Moreover, ferroptosis inhibitors, but not inhibitors of other forms of cell death, abrogated the effect of gefitinib in combination with betulin. Moreover, it also inhibited the tumor growth of NSCLC in vivo. Our findings suggest that gefitinib in combination with betulin is a novel therapeutic approach to overcome gefitinib resistance in EGFR wild-type/KRAS-mutant NSCLC cells by inducing ferroptosis.
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- 2022
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7. Predicted mouse interactome and network-based interpretation of differentially expressed genes.
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Zhang HB, Ding XB, Jin J, Guo WP, Yang QL, Chen PC, Yao H, Ruan L, Tao YT, and Chen X
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- Animals, Humans, Mice, Databases, Genetic, Mammals
- Abstract
The house mouse or Mus musculus has become a premier mammalian model for genetic research due to its genetic and physiological similarities to humans. It brought mechanistic insights into numerous human diseases and has been routinely used to assess drug efficiency and toxicity, as well as to predict patient responses. To facilitate molecular mechanism studies in mouse, we present the Mouse Interactome Database (MID, Version 1), which includes 155,887 putative functional associations between mouse protein-coding genes inferred from functional association evidence integrated from 9 public databases. These putative functional associations are expected to cover 19.32% of all mouse protein interactions, and 26.02% of these function associations may represent protein interactions. On top of MID, we developed a gene set linkage analysis (GSLA) web tool to annotate potential functional impacts from observed differentially expressed genes. Two case studies show that the MID/GSLA system provided precise and informative annotations that other widely used gene set annotation tools, such as PANTHER and DAVID, did not. Both MID and GSLA are accessible through the website http://mouse.biomedtzc.cn., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2022
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8. [Analysis on the relationship of molecular transmission between HIV infected men who have sex with men and their sexual partners].
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Ding XB, Luo MY, Pan XH, Zhang JF, Fan Q, Jiang J, Xia Y, and Guo ZH
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- Cross-Sectional Studies, Homosexuality, Male, Humans, Male, Phylogeny, Sexual Behavior, Sexual Partners, HIV Infections epidemiology, Sexual and Gender Minorities
- Abstract
Objective: To investigate the relationship between HIV-infected men who have sex with men and their sexual partners in Zhejiang province. Methods: A cross-sectional survey was conducted to recruit newly confirmed HIV/AIDS among MSM from 2015 to 2017, including sexual partner identification and molecular epidemiological study. Plasma was collected to extract RNA, and the pol gene of HIV-1 was amplified by RT-PCR/nested PCR. Phylogenetic tree and molecular transmission cluster were analyzed to identify the transmission relationship between sexual partners. Results: A total of 937 HIV/AIDS among MSM were recruited to promote HIV testing for their sexual partners, and 173 positive sexual partners were identified. 50.8% (61/120) of the gene sequences were clustered among the positive sex partners. Seven pairs of clustered sex partners combined with the results of recent infection preliminarily determined the transmission direction. In the clusters, there were statistical differences between the partners who were diagnosed in the same year ( OR =12.190, 95% CI : 1.563-95.054) or with current residence in the different districts ( OR =17.054, 95% CI : 1.742-166.982). Conclusions: Combined with a molecular transmission network, HIV test for the sexual partners of HIV/AIDS among MSM can improve the accurate tracking of cases and preliminarily determine the direction of transmission, according to the results of recent infection. It is suggested that after HIV is confirmed for HIV/AIDS among MSM, HIV tests should be carried out as soon as possible for their sexual partners, including a cross-regional sexual partner tracking test, which is helpful to improve the tracing procedure.
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- 2021
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9. Synthesis of the C4-C16 Polyketide Fragment of Portimines A and B.
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Ding XB, Aitken HRM, Pearl ES, Furkert DP, and Brimble MA
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- Epoxy Compounds, Imines, Polyketides, Spiro Compounds
- Abstract
Stereoselective synthesis of the C4-C16 polyketide fragment of portimines A and B is reported, enabled by our previously established method for the stereoselective synthesis of syn -α,α'-dihydroxyketones. The preparation of this advanced fragment provides insights useful for the total synthesis of portimines A and B. An asymmetric Evans aldol reaction was used to install the C10-C11 adjacent stereogenic centers before incorporation of indantrione, followed by epoxidation and epoxide opening to forge the challenging syn -α,α'-dihydroxyketone functionality.
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- 2021
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10. Nurses' experiences of providing care to patients with COVID-19 in the ICU in Wuhan: a descriptive phenomenological research.
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Hu F, Ma J, Ding XB, Li J, Zeng J, Xu D, Pei J, Luo D, Yang BX, Zhang HY, Zhu XP, and Chen J
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- Humans, Intensive Care Units, Qualitative Research, SARS-CoV-2, COVID-19, Nurses, Nursing Staff, Hospital
- Abstract
Objectives: This phenomenological study aimed to examine intensive care unit (ICU) nurses' experiences of caring for patients with COVID-19, and understand better their everyday experiences of patient' management in the ICU., Design: A descriptive phenomenological research design was used. Individual interviews were conducted. The data were transcribed verbatim and analysed using Colaizzi's seven-step framework., Setting: An ICU with 16 beds in a tertiary hospital in Wuhan, China., Participants: Nurses who had more than 1 year of experience and had provided care to patients with COVID-19 in ICU for more than 1 week were identified as participants. A total of 13 nurses were interviewed., Results: An analysis of these significant statements yielded four distinct stages of feelings, thereby revealing the essence of this phenomenon. Worry about being infected and infecting family members was present across in all four stages. The themes associated with the four stages were as follows: initial contradictory feelings, quick adaption to the 'new working environment' in the first 1-2 weeks in the ICU, desperation after adaption, holding on and survive., Conclusions: The nurses reported distinct experiences of providing care to patients with COVID-19 in ICUs. Interventions, such as providing information about the disease, simulation training, emotional support and follow-up care, are needed to help nurses manage patients with COVID-19 and maintain nurses' health., Competing Interests: Competing interests: None declared., (© Author(s) (or their employer(s)) 2021. Re-use permitted under CC BY-NC. No commercial re-use. See rights and permissions. Published by BMJ.)
- Published
- 2021
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11. Highly porous Fe/N/C catalyst for oxygen reduction: the importance of pores.
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Ding XB, Zhang L, Qin YH, Yang L, Wang C, and Peng C
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Fe/N/C full of ultrafine Fe-based species and pores is synthesized by pyrolyzing a g-C
3 N4 -coordinated Fe matrix embedded in carbon for oxygen reduction. Enhanced oxygen reduction activity is observed on Fe/N/C with higher pore volume and the Fe/N/C catalyst with the largest pore volume shows the highest half-wave potential of 0.890 V.- Published
- 2021
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12. Clinical characteristics of intrahepatic biliary papilloma: A case report.
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Yi D, Zhao LJ, Ding XB, Wang TW, and Liu SY
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Background: Intrahepatic bile duct papilloma (IPNB) is a rare benign tumour from the bile duct epithelium and has a high malignant transformation rate. Early radical resection can obviously improve the prognosis of patients, but it is difficult to be sure of the diagnosis of IPNB before operating., Case Summary: This study included 28 patients with intraductal papilloma admitted to the First Hospital of Jilin University from January 2010 to November 2020 and recorded their clinical manifestations, imaging features, complications and prognosis. There were 12 males and 16 females with an average age of 61.36 ± 8.03 years. Most patients had symptoms of biliary obstruction. Biliary dilatation and cystic mass could be seen on imaging. After surgery, IPNB was diagnosed by pathology., Conclusion: IPNB is a rare benign tumour in the bile duct. Early diagnosis and timely R0 resection can improve the prognosis of IPNB., Competing Interests: Conflict-of-interest statement: The authors declare no conflicts of interest., (©The Author(s) 2021. Published by Baishideng Publishing Group Inc. All rights reserved.)
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- 2021
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13. Efficacy and feasibility of amniotic membrane for the treatment of burn wounds: A meta-analysis.
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Yang C, Xiong AB, He XC, Ding XB, Tian XL, Li Y, and Yan H
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- Humans, Amnion, Biological Dressings, Burns therapy
- Abstract
Background: Burns cause a huge economic burden to society, and the wounds can be very difficult to manage. Clinical experience suggests that amniotic membrane (AM) is an economical and effective biological dressing for burns. However, few systematic reviews or meta-analyses have been published on such use. We aimed to evaluate the role of AM dressings in burn wounds., Methods: A systematic search of the PubMed, Cochrane, Embase, and Web of Science databases was conducted in March 2020. The search was conducted to identify randomized control trials that compared selected features of AM with those of other dressings, such as silver sulfadiazine, polyurethane membrane, and honey. For skin-grafted wounds, we compared AM-covered skin grafts and traditional staple-fixed skin grafts. Outcomes of interest for the efficacy analysis included wound infection, pain, itching, scarring, and healing time. The number of adverse events in each treatment group, the rate of withdrawal because of adverse effects, the cost of treatment, and patient acceptability were assessed for the feasibility analysis., Results: Eleven randomized controlled trials with 816 participants total were identified in our review. Amniotic membrane treatment was more effective than conventional methods, silver sulfadiazine, and polyurethane membrane in treating burn wounds, but AM appears to be less effective than honey. No reports of AM-related disease transmission or adverse reactions were described in the included articles., Conclusion: Amniotic membrane has beneficial effects in treating burn wounds; however, the evidence needs to be strengthened by further robust randomized controlled trials., Level of Evidence: Systematic Review/Meta-analysis, level III., (Copyright © 2020 Wolters Kluwer Health, Inc. All rights reserved.)
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- 2021
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14. HIR V2: a human interactome resource for the biological interpretation of differentially expressed genes via gene set linkage analysis.
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Guo WP, Ding XB, Jin J, Zhang HB, Yang QL, Chen PC, Yao H, Ruan LI, Tao YT, and Chen X
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- Humans, Transcriptome
- Abstract
To facilitate biomedical studies of disease mechanisms, a high-quality interactome that connects functionally related genes is needed to help investigators formulate pathway hypotheses and to interpret the biological logic of a phenotype at the biological process level. Interactions in the updated version of the human interactome resource (HIR V2) were inferred from 36 mathematical characterizations of six types of data that suggest functional associations between genes. This update of the HIR consists of 88 069 pairs of genes (23.2% functional interactions of HIR V2 are in common with the previous version of HIR), representing functional associations that are of strengths similar to those between well-studied protein interactions. Among these functional interactions, 57% may represent protein interactions, which are expected to cover 32% of the true human protein interactome. The gene set linkage analysis (GSLA) tool is developed based on the high-quality HIR V2 to identify the potential functional impacts of the observed transcriptomic changes, helping to elucidate their biological significance and complementing the currently widely used enrichment-based gene set interpretation tools. A case study shows that the annotations reported by the HIR V2/GSLA system are more comprehensive and concise compared to those obtained by the widely used gene set annotation tools such as PANTHER and DAVID. The HIR V2 and GSLA are available at http://human.biomedtzc.cn., (© The Author(s) 2021. Published by Oxford University Press.)
- Published
- 2021
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15. Impaired meningeal lymphatic drainage in patients with idiopathic Parkinson's disease.
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Ding XB, Wang XX, Xia DH, Liu H, Tian HY, Fu Y, Chen YK, Qin C, Wang JQ, Xiang Z, Zhang ZX, Cao QC, Wang W, Li JY, Wu E, Tang BS, Ma MM, Teng JF, and Wang XJ
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- Disease Progression, Humans, Magnetic Resonance Imaging, Meninges diagnostic imaging, Parkinson Disease metabolism, Parkinson Disease therapy, alpha-Synuclein metabolism, Drainage, Lymphatic Vessels physiopathology, Meninges physiopathology, Parkinson Disease physiopathology
- Abstract
Animal studies implicate meningeal lymphatic dysfunction in the pathogenesis of neurodegenerative diseases such as Alzheimer's disease and Parkinson's disease (PD). However, there is no direct evidence in humans to support this role
1-5 . In this study, we used dynamic contrast-enhanced magnetic resonance imaging to assess meningeal lymphatic flow in cognitively normal controls and patients with idiopathic PD (iPD) or atypical Parkinsonian (AP) disorders. We found that patients with iPD exhibited significantly reduced flow through the meningeal lymphatic vessels (mLVs) along the superior sagittal sinus and sigmoid sinus, as well as a notable delay in deep cervical lymph node perfusion, compared to patients with AP. There was no significant difference in the size (cross-sectional area) of mLVs in patients with iPD or AP versus controls. In mice injected with α-synuclein (α-syn) preformed fibrils, we showed that the emergence of α-syn pathology was followed by delayed meningeal lymphatic drainage, loss of tight junctions among meningeal lymphatic endothelial cells and increased inflammation of the meninges. Finally, blocking flow through the mLVs in mice treated with α-syn preformed fibrils increased α-syn pathology and exacerbated motor and memory deficits. These results suggest that meningeal lymphatic drainage dysfunction aggravates α-syn pathology and contributes to the progression of PD.- Published
- 2021
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16. Clinical characteristics of adult-type annular pancreas: A case report.
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Yi D, Ding XB, Dong SS, Shao C, and Zhao LJ
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Background: Annular pancreas (AP) is a rare congenital abnormal rotation of the pancreas. AP rarely occurs in adults. Pancreatic tumors and ampullary tumors are related to AP, so the discovery and treatment of AP are essential., Case Summary: This study investigated the clinical manifestations, imaging features, complications, and treatment of six patients diagnosed with AP at the Department of Hepatobiliary and Pancreatic Surgery, First Hospital of Jilin University from January 2010 to June 2020. There were four males and two females, with an average age of 56.00 ± 9.86 years old. In this study, abdominal pain and jaundice were the main clinical manifestations. Imaging can show the "crocodile jaw sign" or "double bubble sign"., Conclusion: For patients with duodenal or biliary obstruction, physicians should give priority to AP when imaging examinations suggest that the duodenum is wrapped with tissue similar to the density of the pancreas. Symptomatic patients should actively undergo surgical treatment., Competing Interests: Conflict-of-interest statement: The authors declare no conflicts of interest., (©The Author(s) 2020. Published by Baishideng Publishing Group Inc. All rights reserved.)
- Published
- 2020
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17. Predicted rat interactome database and gene set linkage analysis.
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Tao YT, Ding XB, Jin J, Zhang HB, Guo WP, Ruan L, Yang QL, Chen PC, Yao H, and Chen X
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- Animals, Gene Ontology, Rats, Databases, Genetic, Gene Expression Profiling
- Abstract
Rattus norvegicus, or the rat, has been widely used as animal models for a diversity of human diseases in the last 150 years. The rat, as a disease model, has the advantage of relatively large body size and highly similar physiology to humans. In drug discovery, rat models are routinely used in drug efficacy and toxicity assessments. To facilitate molecular pharmacology studies in rats, we present the predicted rat interactome database (PRID), which is a database of high-quality predicted functional gene interactions with balanced sensitivity and specificity. PRID integrates functional gene association data from 10 public databases and infers 305 939 putative functional associations, which are expected to include 13.02% of all rat protein interactions, and 52.59% of these function associations may represent protein interactions. This set of functional interactions may not only facilitate hypothesis formulation in molecular mechanism studies, but also serve as a reference interactome for users to perform gene set linkage analysis (GSLA), which is a web-based tool to infer the potential functional impacts of a set of changed genes observed in transcriptomics analyses. In a case study, we show that GSLA based on PRID may provide more precise and informative annotations for investigators to understand the physiological mechanisms underlying a phenotype and lead investigators to testable hypotheses for further studies. Widely used functional annotation tools such as Gene Ontology (GO) analysis, and Database for Annotation, Visualization and Integrated Discovery (DAVID) did not provide similar insights. Database URL: http://rat.biomedtzc.cn., (© The Author(s) 2020. Published by Oxford University Press.)
- Published
- 2020
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18. Predicted yeast interactome and network-based interpretation of transcriptionally changed genes.
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Jin J, Tao YT, Ding XB, Guo WP, Ruan L, Yang QL, Chen PC, Yao H, Zhang HB, and Chen X
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- Gene Expression Regulation, Fungal, Protein Binding, Protein Interaction Mapping, Saccharomyces cerevisiae metabolism, Saccharomyces cerevisiae Proteins genetics, Saccharomyces cerevisiae genetics, Saccharomyces cerevisiae Proteins metabolism, Transcription, Genetic
- Abstract
Saccharomyces cerevisiae, budding yeast, is a widely used model organism and research tool in genetics studies. Many efforts have been directed at constructing a high-quality comprehensive molecular interaction network to elucidate the design logic of the gene circuitries in this classic model organism. In this work, we present the yeast interactome resource (YIR), which includes 22,238 putative functional gene interactions inferred from functional gene association data integrated from 10 databases focusing on diverse functional perspectives. These putative functional gene interactions are expected to cover 18.84% of yeast protein interactions, and 38.49% may represent protein interactions. Based on the YIR, a gene set linkage analysis (GSLA) web tool was developed to annotate the potential functional impacts of a set of transcriptionally changed genes. In a case study, we show that the YIR/GSLA system produced more extensive and concise annotations compared with widely used gene set annotation tools, including PANTHER and DAVID. Both YIR and GSLA are accessible through the website http://yeast.biomedtzc.cn., (© 2020 John Wiley & Sons, Ltd.)
- Published
- 2020
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19. Predicted functional interactome of Caenorhabditis elegans and a web tool for the functional interpretation of differentially expressed genes.
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Chen PC, Ruan L, Jin J, Tao YT, Ding XB, Zhang HB, Guo WP, Yang QL, Yao H, and Chen X
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- Animals, Gene Expression Profiling, Internet, Caenorhabditis elegans genetics, Transcriptome
- Abstract
Background: The nematode worm, Caenorhabditis elegans, is a saprophytic species that has been emerging as a standard model organism since the early 1960s. This species is useful in numerous fields, including developmental biology, neurobiology, and ageing. A high-quality comprehensive molecular interaction network is needed to facilitate molecular mechanism studies in C. elegans., Results: We present the predicted functional interactome of Caenorhabditis elegans (FIC), which integrates functional association data from 10 public databases to infer functional gene interactions on diverse functional perspectives. In this work, FIC includes 108,550 putative functional associations with balanced sensitivity and specificity, which are expected to cover 21.42% of all C. elegans protein interactions, and 29.25% of these associations may represent protein interactions. Based on FIC, we developed a gene set linkage analysis (GSLA) web tool to interpret potential functional impacts from a set of differentially expressed genes observed in transcriptome analyses., Conclusion: We present the predicted C. elegans interactome database FIC, which is a high-quality database of predicted functional interactions among genes. The functional interactions in FIC serve as a good reference interactome for GSLA to annotate differentially expressed genes for their potential functional impacts. In a case study, the FIC/GSLA system shows more comprehensive and concise annotations compared to other widely used gene set annotation tools, including PANTHER and DAVID. FIC and its associated GSLA are available at the website http://worm.biomedtzc.cn .
- Published
- 2020
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20. Zinc, sulfur and nitrogen co-doped carbon from sodium chloride/zinc chloride-assisted pyrolysis of thiourea/sucrose for highly efficient oxygen reduction reaction in both acidic and alkaline media.
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Cao QC, Ding XB, Li F, Qin YH, and Wang C
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Zn and N co-doped carbon (Zn-N-C) shows encouraging catalytic stability for oxygen reduction reaction (ORR) because of the fulfilled d orbital of Zn, but its catalytic activity is not satisfactory. Herein, hierarchically porous Zn, S and N co-doped carbon (Zn-S-N-C) with large specific surface area (2433 m
2 g-1 ) and pore volume (3.007 cm3 g-1 ) is synthesized by using NaCl/ZnCl2 -assisted pyrolysis of sucrose and thiourea. The Zn-S-N-C catalyst exhibits superior ORR activity with half-wave potentials (E1/2 ) up to 0.774 V in 0.1 M HClO4 and 0.894 V in 0.1 M KOH, good ORR stability with 19- and 4-mV loss in E1/2 values after 10,000 potential cycles in 0.1 M HClO4 and 0.1 M KOH, respectively, and excellent methanol tolerance. The good ORR performance of Zn-S-N-C can be attributed to its enhanced intrinsic ORR activity resulting from the formation of S, N doped carbon and ZnS in Zn-S-N-C, its hierarchically porous structure resulting from the pore-forming roles played by ZnCl2 , NaCl and thiourea, and its improved graphitization degree resulting from the added ZnCl2 during Zn-S-N-C synthesis. This work will provide a novel strategy for the synthesis of hierarchically porous Zn, S and N co-doped carbon materials for ORR., (Copyright © 2020 Elsevier Inc. All rights reserved.)- Published
- 2020
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21. Mortality burden from seasonal influenza in Chongqing, China, 2012-2018.
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Qi L, Li Q, Ding XB, Gao Y, Ling H, Liu T, Xiong Y, Su K, Tang WG, Feng LZ, and Liu QY
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- Aged, China epidemiology, Humans, Influenza A Virus, H3N2 Subtype, Seasons, Influenza A Virus, H1N1 Subtype, Influenza Vaccines, Influenza, Human epidemiology
- Abstract
Purpose: To estimate influenza-associated excess mortality rates (EMRs) in Chongqing from 2012 to 2018., Methods: We obtained weekly mortality data for all-cause and four underlying causes of death (circulatory and respiratory disease (CRD), pneumonia and influenza (P&I), chronic obstructive pulmonary disease (COPD) and ischemic heart disease (IDH)), and influenza surveillance data, from 2012 to 2018. A negative-binomial regression model was used to estimate influenza-associated EMRs in two age groups (<65 years and ≥65 years)., Results: It was estimated that an annual average of 10025 influenza-associated deaths occurred in Chongqing, corresponding to 5.2% of all deaths. The average EMR for all-cause death associated with influenza was 33.5 (95% confidence interval ( CI ): 31.5-35.6) per 100 000 persons, and in separate cause-specific models we attributed 24.7 (95% CI : 23.3-26.0), 0.8 (95% CI : 0.7-0.8), 8.5 (95% CI : 8.1-9.0) and 5.0 (95% CI : 4.7-5.3) per 100 000 persons EMRs to CRD, P&I, COPD and IDH, respectively. The estimated EMR for influenza B virus was 20.6 (95% CI : 20.3-21.0), which was significantly higher than the rates of 5.3 (95% CI : 4.5-6.1) and 7.5 (95% CI : 6.7-8.3) for A(H3N2) and A(H1N1) pdm09 virus, respectively. The estimated EMR was 152.3 (95% CI : 136.1-168.4) for people aged ≥65 years, which was significantly higher than the rate for those aged <65 years (6.8, 95% CI : 6.3-7.2)., Conclusions: Influenza was associated with substantial EMRs in Chongqing, especially among elderly people. Influenza B virus caused a relatively higher excess mortality impact compared with A(H1N1)pdm09 and A(H3N2). It is advisable to optimize future seasonal influenza vaccine reimbursement policy in Chongqing to curb disease burden.
- Published
- 2020
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22. [Characteristics of subtypes and transmission of HIV-1 infected persons among student MSM in Zhejiang province, 2013-2015].
- Author
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Ding XB, Pan XH, Zhang JF, He L, Jiang J, Fan Q, Chen WJ, Zheng L, Luo Y, Liu JN, Guo ZH, and Yao JM
- Subjects
- Adolescent, Adult, Child, China, Genotype, Humans, Male, Phylogeny, Young Adult, HIV Infections transmission, HIV-1 genetics, Homosexuality, Male statistics & numerical data, Students statistics & numerical data
- Abstract
Objective: To investigate the characteristics of subtype diversity and transmission on HIV-1 among 12 to 30 years old student MSM in Zhejiang province. Methods: A total of 290 newly diagnosed HIV infected student MSM were selected as the research objects for molecular studies on HIV, in Zhejiang province during 2013 to 2015. Data on epidemiology and plasma samples of these people were collected. HIV-1 nucleotide sequences of pol gene regions were amplified using the RT-PCR/nested PCR method and sequenced. Phylogenetic analysis was performed to determine the HIV-1 genotypes. Characteristics of transmission mode among these cases were also analyzed. Results: A total of 290 cases, 50.3 % were diagnosed in Hangzhou and 81.0 % had college or above degrees. 178 sequences including 10 subtypes, were obtained, with the main subtypes as CRF01_AE (49.4 % , 88/178) and CRF07_BC (39.3 % , 70/178). A total of 18 molecular transmission clusters were formed (42 cases, cluster size from 2 to 4), with the proportions of clusters as 23.6 % (42/178). 61.9 % (26/42) of student MSM with their schools located in the same district within the transmission clusters. Their sexual partners would include both student MSM and non-student MSM. The proportion of clusters among middle school students was 38.2 % (13/34), higher than that of college students (20.1 % , 29/144) ( χ (2)=4.996, P <0.05). Conclusions: The HIV-1 subtypes of student MSM in Zhejiang province appeared diversity, which indicated with the diversity of sources of infection. The geographical distribution of cluster cases is relatively centralized. In order to effectively control the spread of AIDS, more attention should be paid to the sexual partners involved and to specific programs on intervention.
- Published
- 2020
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23. Proteomics insights into the effects of MSTN on muscle glucose and lipid metabolism in genetically edited cattle.
- Author
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Xin XB, Yang SP, Li X, Liu XF, Zhang LL, Ding XB, Zhang S, Li GP, and Guo H
- Subjects
- Adenylate Kinase metabolism, Adipose Tissue metabolism, Amino Acid Sequence, Animals, Animals, Genetically Modified, Computational Biology, Glycogen metabolism, Peptides chemistry, Peptides metabolism, Phosphoproteins metabolism, Phosphorylation, Reproducibility of Results, Signal Transduction, Cattle metabolism, Gene Editing, Glucose metabolism, Lipid Metabolism, Muscle, Skeletal metabolism, Myostatin metabolism, Proteomics
- Abstract
The molecular mechanism underlying myostatin (MSTN)-regulated metabolic cross-talk remains poorly understood. In this study, we performed comparative proteomic and phosphoproteomic analyses of gluteus muscle tissues from MSTN
-/- transgenic cattle using a shotgun-based tandem mass tag (TMT) 6-plex labeling method to explore the signaling pathway of MSTN in metabolic cross-talk and cellular metabolism during muscle development. A total of 72 differentially expressed proteins (DEPs) and 36 differentially expressed phosphoproteins (DEPPs) were identified in MSTN-/- cattle compared to wild-type cattle. Bioinformatics analyses showed that MSTN knockout increased the activity of many key enzymes involved in fatty acid β-oxidation and glycolysis processes in cattle. Furthermore, comprehensive pathway analyses and hypothesis-driven AMP-activated protein kinase (AMPK) activity assays suggested that MSTN knockout triggers the activation of AMPK signaling pathways to regulate glucose and lipid metabolism by increasing the AMP/ATP ratio. Our results shed new light on the potential regulatory mechanism of MSTN associated with metabolic cross-talk in muscle development, which can be used in animal breeding to improve meat production in livestock animals, and can also provide valuable insight into treatments for obesity and diabetes mellitus in humans., (Copyright © 2019. Published by Elsevier Inc.)- Published
- 2020
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24. The burden of influenza and pneumonia mortality attributable to absolute humidity among elderly people in Chongqing, China, 2012-2018.
- Author
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Qi L, Gao Y, Yang J, Ding XB, Xiong Y, Su K, Liu T, Li Q, Tang WG, and Liu QY
- Subjects
- Aged, China, Cities, Hot Temperature, Humans, Humidity, Mortality, Influenza, Human, Pneumonia
- Abstract
Objective: To examine the association between absolute humidity (AH) and influenza and pneumonia (P&I) mortality, and to quantify P&I mortality burden attributable to non-optimum AHs among elderly people aged ≥65 years in Chongqing, the largest municipality of China., Methods: Daily data of P&I mortality from 2012 to 2018, and the contemporaneous meteorological data in the study area were collected. Distributed lag non-linear model (DLNM) was applied to estimate the non-linear and delayed effects of absolute humidity (AH) on P&I mortality. Then, attributable deaths were calculated for the dry and moist AH, defined as AH below and above the minimum mortality AH (MMAH), respectively. Moderate and extreme AHs were defined using cutoffs at the 2.5th and 97.5th percentiles of AH., Results: The relationship between AH and P&I mortality was a U-shaped curve. The MMAH was 11.5 g/m
3 (46.4th percentile). In total, 25.7% (95% confidence interval: 10.0-38.2) of P&I mortality (4673 deaths) was attributed to non-optimum AHs. Low AHs were responsible for 12.7% of the P&I death burden (95%CI: 0.2-20.1), while high AHs for 13.0% (95%CI: -9.4-25.7). Extreme low and high AHs accounted for 3.7% (95%CI: 0.1-6.8) and 3.0% (95%CI: 0-5.4) of P&I mortality., Conclusions: Our study showed that both low AHs and high AHs are responsible for considerable AH-related P&I mortality burden among elderly people. Our results may have important public health implications for the development of relevant intervention policies to reduce P&I deaths among the elderly., Competing Interests: Declaration of competing interest The authors declare that they have no conflict of interest., (Copyright © 2020. Published by Elsevier B.V.)- Published
- 2020
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25. Autonomic ganglionic injection of α-synuclein fibrils as a model of pure autonomic failure α-synucleinopathy.
- Author
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Wang XJ, Ma MM, Zhou LB, Jiang XY, Hao MM, Teng RKF, Wu E, Tang BS, Li JY, Teng JF, and Ding XB
- Subjects
- Animals, Behavior Observation Techniques, Disease Models, Animal, Ganglia, Autonomic pathology, Humans, Male, Mice, Mice, Transgenic, Mutation, Protein Aggregates, Pure Autonomic Failure genetics, Pure Autonomic Failure physiopathology, Synucleinopathies genetics, Synucleinopathies physiopathology, alpha-Synuclein administration & dosage, alpha-Synuclein genetics, Ganglia, Autonomic physiopathology, Pure Autonomic Failure pathology, Synucleinopathies pathology, alpha-Synuclein metabolism
- Abstract
α-Synucleinopathies are characterized by autonomic dysfunction and motor impairments. In the pure autonomic failure (PAF), α-synuclein (α-Syn) pathology is confined within the autonomic nervous system with no motor features, but mouse models recapitulating PAF without motor dysfunction are lacking. Here, we show that in TgM83
+/- mice, inoculation of α-Syn preformed fibrils (PFFs) into the stellate and celiac ganglia induces spreading of α-Syn pathology only through the autonomic pathway to both the central nervous system (CNS) and the autonomic innervation of peripheral organs bidirectionally. In parallel, the mice develop autonomic dysfunction, featured by orthostatic hypotension, constipation, hypohidrosis and hyposmia, without motor dysfunction. Thus, we have generated a mouse model of pure autonomic dysfunction caused by α-Syn pathology. This model may help define the mechanistic link between transmission of pathological α-Syn and the cardinal features of autonomic dysfunction in α-synucleinopathy.- Published
- 2020
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26. [Investigation of oral health knowledge, attitude, behavior of 12-15 years old children in Chongqing].
- Author
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Deng L, Yang ZY, Cai T, Li YH, Lü XY, Ding XB, and Zhou Z
- Subjects
- Adolescent, Attitude to Health, Child, Health Behavior, Health Knowledge, Attitudes, Practice, Humans, Rural Population, Surveys and Questionnaires, Toothbrushing, Health Education, Dental, Oral Health
- Abstract
Objective: To investigate the status of oral health knowledge, attitude, behavior of 12-15 years old children and provide a theoretical basis of prevention., Methods: Multi-stage stratified sampling method was used to extract four middle school students from Chongqing districts and counties (2 in the main urban area and 2 suburbs), and their oral health knowledge, attitudes and behaviors were investigated through questionnaires. All data were entered using Epidata and statistical analysis was performed using SPSS 21.0 software., Results: A total of 3 902 valid questionnaires were collected. The proportion of people who had good brushing habits was 39.7% (1 548), the average oral health knowledge accuracy rate was 58.9%, and the average oral health positive attitude was 88.6%. The number of middle school students who attended the dental experience was 54.5% (2 127), and that of the school who received oral health education was 17.5% (681). There were gender and regional differences in brushing habits., Conclusions: The knowledge and behavior of oral health among 12-15-year-old middle school students in Chongqing need to be improved. Oral health education for middle school students should be strengthened, especially in rural and suburban areas.
- Published
- 2020
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27. Predicted Drosophila Interactome Resource and web tool for functional interpretation of differentially expressed genes.
- Author
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Ding XB, Jin J, Tao YT, Guo WP, Ruan L, Yang QL, Chen PC, Yao H, Zhang HB, and Chen X
- Subjects
- Algorithms, Animals, Drosophila classification, Drosophila metabolism, Drosophila Proteins genetics, Drosophila Proteins metabolism, Drosophila melanogaster metabolism, Internet, Models, Genetic, Reproducibility of Results, User-Computer Interface, Databases, Genetic, Drosophila genetics, Drosophila melanogaster genetics, Gene Expression Profiling methods, Protein Interaction Mapping methods
- Abstract
Drosophila melanogaster is a well-established model organism that is widely used in genetic studies. This species enjoys the availability of a wide range of research tools, well-annotated reference databases and highly similar gene circuitry to other insects. To facilitate molecular mechanism studies in Drosophila, we present the Predicted Drosophila Interactome Resource (PDIR), a database of high-quality predicted functional gene interactions. These interactions were inferred from evidence in 10 public databases providing information for functional gene interactions from diverse perspectives. The current version of PDIR includes 102 835 putative functional associations with balanced sensitivity and specificity, which are expected to cover 22.56% of all Drosophila protein interactions. This set of functional interactions is a good reference for hypothesis formulation in molecular mechanism studies. At the same time, these interactions also serve as a high-quality reference interactome for gene set linkage analysis (GSLA), which is a web tool for the interpretation of the potential functional impacts of a set of changed genes observed in transcriptomics analyses. In a case study, we show that the PDIR/GSLA system was able to produce a more comprehensive and concise interpretation of the collective functional impact of multiple simultaneously changed genes compared with the widely used gene set annotation tools, including PANTHER and David. PDIR and its associated GSLA service can be accessed at http://drosophila.biomedtzc.cn., (© The Author(s) 2020. Published by Oxford University Press.)
- Published
- 2020
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28. A ZIF-derived hierarchically porous Fe-Zn-N-C catalyst synthesized via a two-stage pyrolysis for the highly efficient oxygen reduction reaction in both acidic and alkaline media.
- Author
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Li F, Ding XB, Cao QC, Qin YH, and Wang C
- Abstract
A ZIF-derived Fe-Zn-N-C catalyst with sufficient exposure of bimetallic active sites and well-balanced micro/mesopores is synthesized by a two-stage pyrolysis process and exhibits superior oxygen reduction activity with high half-wave potentials of up to 0.819 V in 0.1 M HClO
4 and 0.918 V in 0.1 M KOH.- Published
- 2019
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29. Highly Diastereoselective Synthesis of Syn-1,3-Dihydroxyketone Motifs from Propargylic Alcohols via Spiroepoxide Intermediates.
- Author
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Ding XB, Furkert DP, and Brimble MA
- Abstract
Syn dihydroxyketone motifs are embedded in a wide range of biologically active natural products, however the development of stereoselective synthetic methods to assemble these structures has proven a challenging task. We report a highly diastereoselective method for the synthesis of syn dihydroxyketones from propargylic alcohols, with wide scope for application in natural product synthesis. The reaction sequence involves regioselective cyclisation of propargylic alcohols with incorporation of a triketone to give enol dioxolanes that are then diastereoselectively epoxidised to form unusual spiroepoxide intermediates. Hydrolysis affords syn dihydroxyketones as essentially single diastereisomers. The reaction sequence is operationally simple, of wide substrate scope, and remarkably can be efficiently carried out as a one-pot process with no loss of overall yield or diastereoselectivity., (© 2019 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.)
- Published
- 2019
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30. [Retrospective cohort study on the correlation between high value of lactic acid and risk of death in 127 patients with extensive burn during shock stage].
- Author
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Ding XB, Chen J, Yang YT, Peng X, Yan H, and Peng YZ
- Subjects
- Adult, Burns mortality, Female, Fluid Therapy, Humans, Male, Middle Aged, Retrospective Studies, Serum Albumin, Severity of Illness Index, Treatment Outcome, Burns blood, Lactic Acid blood, Shock mortality
- Abstract
Objective: To analyze the relationship between serum lactic acid value and risk of death in patients with extensive burn during shock stage and the related influencing factors. Methods: Clinical data of 127 patients (111 males and 16 females) with extensive burn admitted to Institute of Burn Research of the First Affiliated Hospital of Army Medical University from January 2009 to December 2013 and Department of Plastic Surgery and Burns of the Affiliated Hospital of Southwest Medical University from January 2016 to December 2018, who met the admission criteria, were retrospectively analyzed. The patients aged 21 to 62 years, with total burn area more than 50% total body surface area. All patients were treated with antishock therapy after admission. (1) According to the treatment outcome, the patients were divided into survival group ( n =98) and death group ( n =29). The gender, age, total burn area, partial-thickness burn area, full-thickness burn area, abbreviated burn severity index (ABSI), admission time after injury, number of patients with inhalation injury, number of patients with acute renal failure, and serum lactic acid values on admission and at post admission hour (PAH) 12, 24, 36, and 48 were recorded. (2) According to the optimal positive cut-off value of serum lactic acid 48 hours after admission, the patients were divided into high lactic acid group and normal lactic acid group. Age, gender, total burn area, indexes at PAH 48 including urea nitrogen, creatinine, alanine aminotransferase (ALT), aspartate aminotransferase (AST), total serum bilirubin, alkaline phosphatase (ALP), albumin, white blood cell count, platelet count, lymphocyte count, prothrombin time (PT), hematocrit value, oxygenation index, respiratory index (RI), the alveolar-arterial oxygen partial pressure difference, mean arterial pressure (MAP) at PAH 48, the average urine volume within 48 hours after admission, the total volume of intravenous fluid infusion within 48 hours after admission, the volume of fluid infusion per kilogram of body mass within the first 24 hours after admission, the volume of fluid infusion per one percent of body surface area per kilogram of body mass within the first 24 hours after admission, the volume of urine per kilogram of body mass per hour within the first 24 hours after admission, and the percentage of hospital death were recorded. Data were processed with t test, chi-square test, and Fisher's exact probability test. Cox regression analysis was used to screen independent risk factors affecting the prognosis of patients. Receiver operating characteristic curve (ROC) of serum lactic acid value at PAH 48 of 127 patients was drawn to predict patients' death and determine the optimal positive cut-off value. Multivariate logistic regression analysis was used to screen independent risk factors causing increase of serum lactic acid. Results: (1) There were significantly statistical differences in total burn area, full-thickness burn area, and ABSI of patients between survival group and death group ( t =6.257, 4.476, 5.727, P <0.01), while other indexes between the two groups were close. (2) The serum values of lactic acid of patients in death group on admission and at PAH 12, 24, 36, and 48 were (4.00±0.28), (4.50±0.26), (4.02±0.31), (3.48±0.22), (3.40±0.19) mmol/L, respectively, which were significantly higher than those in survival group [(3.30±0.21), (3.20±0.19), (2.33±0.17), (1.85±0.18), (1.50±0.09) mmol/L, t =14.552, 29.603, 38.133, 40.648, 74.973, P <0.05 or P <0.01]. (3) Cox regression analysis showed that the serum value of lactic acid at PAH 48 was the independent risk factor affecting the prognosis of patients, with risk ratio of 1.853 and 95% confidence interval of 1.342-2.559, P <0.01. (4) The total area under ROC of serum value of lactic acid at PAH 48 to predict death of 127 patients was 0.811, with 95% confidence interval of 0.699-0.924, P <0.01. The optimal positive cut-off value of serum value of lactic acid was 1.75 mmol/L, with sensitivity of 75.0% and specificity of 79.5% for predicting death. (5) There were significantly statistical differences in total burn area, ALT, AST, ALP, PT, total serum bilirubin, total volume of intravenous fluid infusion within 48 hours after admission, volume of fluid infusion per kilogram of body mass within the first 24 hours after admission, and percentage of hospital deaths of patients between high lactic acid group ( n =34) and normal lactic acid group ( n =93), t =3.592, 6.797, 10.367, 2.089, 2.880, 4.517, 2.984, 4.044, χ (2)=58.498, P <0.05 or P <0.01, while other indexes were close between the two groups. (6) Multivariate logistic regression analysis showed that AST and total serum bilirubin were independent risk factors for increase of serum lactic acid, with odds ratios of 1.021 and 1.064 and 95% confidence intervals of 1.001-1.040 and 1.001-1.132, P <0.05. Conclusions: Serum value of lactic acid at PAH 48 can independently predict the death of patients with extensive burns. Liver injury is an important risk factor causing hyperlacticemia during burn shock stage. Widespread increase of vascular permeability and large amount of fluid resuscitation are the core factors leading to aggravation of abdominal organ injury.
- Published
- 2019
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31. [An investigation on the need, the utilization, and the influencing factors of dental services for pre-school children in selected areas in Chongqing province].
- Author
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Wang JX, Yang ZY, Wu XY, Cai T, Deng L, Lü XY, Ding XB, and Zhou Z
- Subjects
- Child, Child, Preschool, Dental Health Surveys, Humans, Oral Health, Prevalence, Dental Care statistics & numerical data, Dental Caries
- Abstract
Objective: The aim of this study is to survey the need, the utilization, and the influencing factors of dental services for children in selected areas in Chongqing province by investigating their oral health status. The survey will provide references for preventive oral health care in targeted Chongqing areas, which may improve the level of oral health among pre-school children., Methods: Random cluster sampling was utilized according to standards of the Fourth National Oral Health Epidemiological sampling survey, and 1 300 children between the ages of three and four years old from 24 kindergartens in 12 subdistricts of three areas in Chongqing were interviewed for free dental checkups and to participate in the survey. The questionnaires were designed according to the Anderson model and were answered by the children's parents. The results were analyzed utilizing Chi-square test logistic regression., Results: The prevalence rate of caries among the pre-school children in selected areas of Chongqing was 55.4%, the decay, missing, filled surface (dmfs) was 6 696, the mean dmfs was 5.2, and the caries filling constituent ratio was 2.3%. A total of 1 173 questionnaires were analyzed. The ratio for seeing a dentist for therapeutic reasons was 6.31% (74/1 173) and for prevalence was 22.93% (269/1 173)., Conclusions: The oral health service needs of pre-school children in selected areas of Chongqing are large and the oral health service utilization rate is low. Oral health care processes are arduous; thus, targeted oral prevention policies should be created.
- Published
- 2019
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32. Long-read sequencing identified intronic repeat expansions in SAMD12 from Chinese pedigrees affected with familial cortical myoclonic tremor with epilepsy.
- Author
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Zeng S, Zhang MY, Wang XJ, Hu ZM, Li JC, Li N, Wang JL, Liang F, Yang Q, Liu Q, Fang L, Hao JW, Shi FD, Ding XB, Teng JF, Yin XM, Jiang H, Liao WP, Liu JY, Wang K, Xia K, and Tang BS
- Subjects
- Adult, Comparative Genomic Hybridization, Epilepsies, Myoclonic diagnosis, Epilepsies, Myoclonic genetics, Female, Humans, Male, Sequence Analysis, DNA, Exome Sequencing, Whole Genome Sequencing, Genetic Association Studies methods, Introns, Nerve Tissue Proteins genetics, Pedigree, Phenotype, Tandem Repeat Sequences
- Abstract
Background: The locus for familial cortical myoclonic tremor with epilepsy (FCMTE) has long been mapped to 8q24 in linkage studies, but the causative mutations remain unclear. Recently, expansions of intronic TTTCA and TTTTA repeat motifs within SAMD12 were found to be involved in the pathogenesis of FCMTE in Japanese pedigrees. We aim to identify the causative mutations of FCMTE in Chinese pedigrees., Methods: We performed genetic linkage analysis by microsatellite markers in a five-generation Chinese pedigree with 55 members. We also used array-comparative genomic hybridisation (CGH) and next-generation sequencing (NGS) technologies (whole-exome sequencing, capture region deep sequencing and whole-genome sequencing) to identify the causative mutations in the disease locus. Recently, we used low-coverage (~10×) long-read genome sequencing (LRS) on the PacBio Sequel and Oxford Nanopore platforms to identify the causative mutations, and used repeat-primed PCR for validation of the repeat expansions., Results: Linkage analysis mapped the disease locus to 8q23.3-24.23. Array-CGH and NGS failed to identify causative mutations in this locus. LRS identified the intronic TTTCA and TTTTA repeat expansions in SAMD12 as the causative mutations, thus corroborating the recently published results in Japanese pedigrees., Conclusions: We identified the pentanucleotide repeat expansion in SAMD12 as the causative mutation in Chinese FCMTE pedigrees. Our study also suggested that LRS is an effective tool for molecular diagnosis of genetic disorders, especially for neurological diseases that cannot be positively diagnosed by conventional clinical microarray and NGS technologies., Competing Interests: Competing interests: FL and QY are employees and KW is consultant of GrandOmics Biosciences., (© Author(s) (or their employer(s)) 2019. No commercial re-use. See rights and permissions. Published by BMJ.)
- Published
- 2019
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33. Reactivity of 2-Nitropyrrole Systems: Development of Improved Synthetic Approaches to Nitropyrrole Natural Products.
- Author
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Ding XB, Brimble MA, and Furkert DP
- Abstract
Fundamental study of the reactivity of 2-nitropyrrole systems has enabled the identification of effective methods for incorporation of this unusual motif into advanced natural product frameworks. The presence of electron-rich pyrrole N-protecting groups (BOM, Boz) was demonstrated to enable a variety of previously unsuccessful palladium-mediated cross-couplings to be carried out in high yield. Based on this foundation, a series of regio- and stereoselective synthetic routes toward the nitropyrrolin and heronapyrrole families of natural products was developed by our group (G1-3). A full account of the strategic evolution of these approaches is reported here, highlighting the details of the setbacks encountered and eventual successes achieved en route, including the total synthesis of heronapyrrole B. The fundamental studies and completed total syntheses provide general access to the bioactive 2-nitropyrrole natural product manifold and also establish practical and efficient methods for preparation and elaboration of the medicinally relevant 2-nitropyrrole motif.
- Published
- 2018
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34. [Probability of premature death and disease burden of myocardial infarction in 2016, Chongqing Municipality].
- Author
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Ding XB, Jiao Y, Mao DQ, and Tang WW
- Published
- 2018
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35. [Characteristic analysis of molecular subtypes and recombinant structure of HIV-1 infection in Zhejiang Province, 2015].
- Author
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Fan Q, Zhang WJ, Yang JZ, He L, Ding XB, and Zhang JF
- Subjects
- China, Female, Genotype, HIV Infections genetics, HIV-1 pathogenicity, Humans, Male, Marital Status, Phylogeny, Polymerase Chain Reaction, Research Design, Surveys and Questionnaires, Gene Amplification, Genes, pol genetics, HIV Infections epidemiology, HIV-1 genetics, Molecular Epidemiology, Recombination, Genetic
- Abstract
Objective: To understand the molecular subtypes and recombinant structure of HIV-1 infection in Zhejiang Province. Methods: According to the method of stratified random sampling method, a total of 302 newly HIV infected people (excluding AIDS patients) were selected as the subjects of the investigation from April to June, 2015, who were all newly HIV positive patients reported in Zhejiang Province and were diagnosed as HIV positive and had not received antiretroviral treatment. Questionnaires were used to collect information such as gender, residency, marital status, route of transmission and case reporting area. At least 8 ml of venous blood was collected from HIV infected people, reverse transcription-polymerase chain reaction (RT-PCR) and nested PCR were used to amplify the pol gene sequence of HIV-1 strains and circulating recombination forms (CRF) and unique recombinant form (URF) strains were screened using phylogenetic tree, and molecular subtype analysis and recombinant analysis were performed. Results: Of the 302 HIV infected people, 18 cases were infected with new CRFs or URFs, among which 15 were male (83.3%), 3 were heterosexual transmission (17.7%); 8 cases (44.4%) were infected with new CRFs, which included CRF55_01B 5(27.8%), CRF67_01B 2 (11.1%), CRF69_01B 1 (5.6%); 10 cases (55.6%) were infected with URFs, in which 6 cases were infected with two groups of recombinant strains composed of CRF01_AE subtype and CRF07_BC subtypes in pol region, 3 cases were infected with three groups of recombinant strains of the two subtypes in pol region, and 1 case could not be accurately determined of the recombinant structure. The results of recombinant source analysis showed that the newly recombinant strains found from Zhejiang province were highly homologous to the strains from Guangdong, Anhui, Hebei, Yunnan, Liaoning province, and the sequence similarity was 94.4%-98.0%. Conclusion: The new recombinant strains of Zhejiang province included CRFs strains and URFs strains with CRF01_AE and CRF07_BC as the main recombinant structure mode, and all of them were introduced from other places and formed a trans-regional chain of HIV transmission.
- Published
- 2018
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36. [Analysis on HIV-1 subtypes and transmission clusters in newly reported HIV/AIDS cases in Yiwu, Zhejiang Province, 2016].
- Author
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Zhang JF, Yao JM, Fan Q, Chen WJ, Pan XH, Ding XB, Yang JZ, and Fu T
- Subjects
- Adult, China epidemiology, Cross-Sectional Studies, Genes, pol, Genetic Variation, Genotype, HIV Infections diagnosis, HIV Infections genetics, HIV-1 isolation & purification, Heterosexuality, Homosexuality, Humans, Male, Middle Aged, Molecular Epidemiology, Mutation, Phylogeny, Polymerase Chain Reaction, Prevalence, RNA, Viral blood, Acquired Immunodeficiency Syndrome epidemiology, HIV Infections epidemiology, HIV Infections transmission, HIV-1 classification, HIV-1 genetics
- Abstract
Objective: To understand the characteristics of distribution on HIV-1 subtypes and the transmission clusters in Yiwu in Zhejiang province. Methods: A cross-sectional study of molecular epidemiology was carried out on newly reported HIV/AIDS cases in Yiwu. RNA was extracted from 168 plasma samples, followed by RT-PCR and nest-PCR for pol gene amplification, sequencing, phylogenetic tree construction used for analyzing the subtypes and transmission clusters. Mutations on drug resistance was analyzed by CPR 6.0 online tool. Results: Subjects were mainly males (86.3%, 145/168), with average age as (39.1±13.4) years old and most of them were migrants (66.7%, 112/168). The major routes of transmission included homosexual (51.2%, 86/168) and heterosexual (48.8%, 82/168) contacts. The rate of success for sequence acquisition was 89.9% (151/168). The dominant subtypes showed as CRF01_AE (74, 49.0%) and CRF07_BC (64, 42.4%), followed by CRF08_BC (5, 3.3%), CRF55_01B (3, 2.0%), each case of subtype B, CRF45_cpx, CRF59_01B, CRF85_BC and URF (B/C). CRF45_cpx and CRF85_BC were discovered the first time in Zhejiang province. Twenty-six transmission clusters involving 65 cases were found, with the total clustered rate as 43.0% (65/151), in which the CRF01_AE clustered rate appeared as 54.1% (40/74), higher than that of CRF07_BC (21/64, 32.8%). The average size of cluster was 2.5 cases/cluster, with average size of cluster in CRF01_AE patients infected through heterosexual transmission as the largest (3.5 cases/cluster). The prevalence of transmitted drug resistance was 4.6% (7/151). Seven cases with surveillance drug resistant mutations (SDRM) were found, including 5 cases of M46L (3.3%), and one case of F77L or Y181C. Conclusion: HIV genetic diversity and a variety of transmission clusters had been noticed in this study area (Yiwu). Programs on monitoring the subtypes and transmission clusters should be continued and strengthened.
- Published
- 2017
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37. [Analysis on probability of premature death and cause eliminated life expectancy of major non-communicable diseases in Chongqing Municipality, 2016].
- Author
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Ding XB, Tang WW, Mao DQ, Jiao Y, and Shen ZZ
- Subjects
- Adult, Aged, Cardiovascular Diseases, Cause of Death, Diabetes Mellitus, Female, Humans, Male, Middle Aged, Neoplasms, Risk Factors, Life Expectancy, Mortality, Premature, Noncommunicable Diseases mortality
- Abstract
Objective: To analyze the premature death probability and cause-eliminated life expectancy of cardiovascular disease, cancer, chronic respiratory disease and diabetes in Chongqing residents in 2016 so as to provide recommendation for non-communicable diseases (NCDs) prevention and control in Chongqing. Methods: Death cases of Chongqing Municipality between January 1(st) and December 31(st), 2016 were reported through death case registry system of national center for disease prevention and control. Death cases were sorted by international classification of disease (ICD-10). Mortality rate, standardized mortality rate, constituent ratio, premature death probability, life expectancy, and cause-eliminated life expectancy of four major NCDs were analyzed. Results: A total of 218 004 death cases were reported in Chongqing, 2016, and the mortality rate was 731.73/100 000. Of them, a total of 179 637 death cases of the four major NCDs including cardiovascular disease, cancer, chronic respiratory disease and diabetes were reported, accounting for 82.40% of all death cases. The mortality rate and standardized mortality rate of four major NCDs was 602.95/100 000 and 455.82/100 000, respectively. The premature death probability of four major NCDs was 15.96%, and males (25.39%) had a higher premature death probability than females (10.78%). The premature death probability of cardiovascular disease, cancer, chronic respiratory disease, and diabetes were 6.01%, 8.32%, 2.05%, and 0.43%, respectively. Life expectancy would increase by 6.02, 3.19, 1.89, and 0.19 years, after eliminating cardiovascular disease, cancer, chronic respiratory disease and diabetes respectively. Conclusion: The premature death probability of major NCDs was high in Chongqing, and males had a higher premature death probability than females did. Intervention and health management of the population should be conducted according to different gender-based risk factors to reduce the premature death probability.
- Published
- 2017
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38. Synthesis and biological evaluation of novel teixobactin analogues.
- Author
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Schumacher CE, Harris PWR, Ding XB, Krause B, Wright TH, Cook GM, Furkert DP, and Brimble MA
- Subjects
- Anti-Bacterial Agents chemical synthesis, Anti-Bacterial Agents chemistry, Depsipeptides chemical synthesis, Depsipeptides chemistry, Dose-Response Relationship, Drug, Microbial Sensitivity Tests, Molecular Conformation, Structure-Activity Relationship, Anti-Bacterial Agents pharmacology, Depsipeptides pharmacology, Enterococcus faecalis drug effects, Staphylococcus aureus drug effects
- Abstract
The cyclic depsipeptide, teixobactin, possesses promising activity against a range of antimicrobial-resistant (AMR) pathogenic bacteria, including Staphylococcus aureus and Mycobacterium tuberculosis. Teixobactin contains a number of non-canonical residues, including the synthetically challenging amino acid, l-allo-enduracididine, complicating clinical application of this peptide. Herein, we report the synthesis of six analogues of teixobactin, in which the non-canonical l-allo-enduracididine amino acid is replaced by isosteric, commercially available Fmoc-amino acid building blocks. Biological evaluation of the analogues has revealed promising activity, particularly for guanidine isosteres, against AMR strains of S. aureus and Enterococcus faecalis, highlighting the potential for this class of cyclic depsipeptides in the treatment of Gram-positive infections.
- Published
- 2017
- Full Text
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39. General Synthesis of the Nitropyrrolin Family of Natural Products via Regioselective CO 2 -Mediated Alkyne Hydration.
- Author
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Ding XB, Furkert DP, and Brimble MA
- Abstract
The total synthesis of the 2-nitropyrrole natural products nitropyrrolins A and B and the formal synthesis of nitropyrrolin D are reported. The key 2-nitro-4-alkylpyrrole core was efficiently assembled by Sonogashira cross-coupling, with complete control of regioselectivity. An unusual carboxylative cyclization, sulfonylcarbamate formation, and base-promoted cleavage sequence enabled access to the key hydroxy ketone without affecting the protected 2-nitropyrrole unit. The total synthesis provides a general approach for preparation of the bioactive nitropyrrolin family of natural products.
- Published
- 2017
- Full Text
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40. lnc133b, a novel, long non-coding RNA, regulates bovine skeletal muscle satellite cell proliferation and differentiation by mediating miR-133b.
- Author
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Jin CF, Li Y, Ding XB, Li X, Zhang LL, Liu XF, and Guo H
- Subjects
- Animals, Cattle, Cells, Cultured, Receptor, IGF Type 1 genetics, Receptor, IGF Type 1 metabolism, Satellite Cells, Skeletal Muscle cytology, Cell Differentiation, Cell Proliferation, MicroRNAs genetics, RNA, Long Noncoding genetics, Satellite Cells, Skeletal Muscle metabolism
- Abstract
The proliferation and differentiation of skeletal muscle satellite cells is regulated by multiple regulatory factors including non-coding RNAs. It has been reported that miR-133b regulates myogenesis. In this study, we detected a novel lncRNA, lnc133b, which is completely complemented by mature miR-133b, indicating that lnc133b may regulate the expression of miR-133b by "sponge" miR-133b. A luciferase report assay confirmed that lnc133b interacts with miR-133b in regions complemented by miR-133b. We successfully constructed lnc133b gain/loss-of-function cell models by infecting LV-1nc133b and transfecting si-lnc133b into satellite cells. Results of quantitative real-time polymerase chain reaction (qRT-PCR) and 5-ethynyl-2'-deoxyuridine (EdU) assays showed that overexpression or inhibition of lnc133b could promote the proliferation or inhibition of satellite cell differentiation. The qRT-PCR results also showed that lnc133b negatively regulates miR-133b expression and a Western blot assay showed that lnc133b positively regulates IGF1R expression, indicating that the lnc133b/miR-133b/IGF1R axis is a potential pathway for promoting satellite cell proliferation and repressing their differentiation through the ceRNA mechanism. Building on the findings of previous reports, we constructed the lnc133b/miR-133b/FGFR1 & PP2AC pathway to improve the lnc133b regulation network regulating the proliferation and differentiation of satellite cells. The current study provides a new perspective for understanding the mechanism regulating satellite cell proliferation and differentiation through the interaction of miR-133b and lnc133b., (Copyright © 2017 Elsevier B.V. All rights reserved.)
- Published
- 2017
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41. Insights into the function of n-3 PUFAs in fat-1 transgenic cattle.
- Author
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Liu XF, Wei ZY, Bai CL, Ding XB, Li X, Su GH, Cheng L, Zhang L, Guo H, and Li GP
- Subjects
- Animals, Animals, Genetically Modified, Cattle, Gastrointestinal Microbiome, Gene Dosage, Gene Expression Profiling, Fatty Acid Desaturases genetics, Fatty Acids, Omega-3 metabolism
- Abstract
The n-3 PUFAs have many beneficial effects on human health, including roles in immunity, neurodevelopment, and preventing cardiovascular disease. In this study, we established reliable model fat-1 transgenic cattle using transgenic technology and performed a systematic investigation to examine the function of n-3 PUFAs. Our results showed that expression of the fat-1 gene improved several biochemical parameters related to liver function and to plasma glucose and plasma lipid metabolism. Results of global gene and plasma protein expression analysis showed that 310 genes and 13 plasma proteins differed significantly in the blood of fat-1 transgenic cattle compared with WT cattle, reflecting their regulatory roles in the immune and cardiovascular systems. Finally, changes in the gut microflora were also noted in the fat-1 transgenic cattle, suggesting novel roles for n-3 PUFAs in the metabolism of glucose and lipids, as well as anti-stress properties. To the best of our knowledge, this is the first report using multiple parallel analyses to investigate the role of n-3 PUFAs using models such as fat-1 transgenic cattle. This study provides novel insights into the regulatory mechanism of fat-1 in the immune and cardiovascular systems, as well as its anti-stress role., (Copyright © 2017 by the American Society for Biochemistry and Molecular Biology, Inc.)
- Published
- 2017
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42. An atlas and analysis of bovine skeletal muscle long noncoding RNAs.
- Author
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Liu XF, Ding XB, Li X, Jin CF, Yue YW, Li GP, and Guo H
- Subjects
- Animals, Chromosome Mapping, Gene Expression, MicroRNAs genetics, Muscle, Skeletal growth & development, Open Reading Frames, RNA, Messenger genetics, Sequence Analysis, RNA, Transcriptome, Cattle genetics, Muscle, Skeletal metabolism, RNA, Long Noncoding genetics
- Abstract
Long noncoding RNAs (lncRNAs) have various biological functions and have been extensively studied in recent years. However, the identification and characterization of bovine lncRNAs in skeletal muscle has been very limited compared with that of lncRNAs in other model organisms. In this study, 7188 bovine skeletal muscle lncRNAs were identified by RNA-Seq and a stringent screening procedure in four different muscle tissues. These lncRNAs shared many characteristics with other mammalian lncRNAs, such as a shorter open reading frame and lower expression level than for mRNAs. Furthermore, the chromosomal locations and global expression patterns for these lncRNAs are also described in detail. More importantly, we detected the important interaction relationships of lncRNAs-miRNAs-mRNAs related to muscle development among 36 lncRNAs, 62 miRNAs and 12 mRNAs. Our results provide a global expression pattern of lncRNAs specific to bovine skeletal muscle and provide important targets for revealing the function of bovine muscle development by thoroughly studying the interaction relationships of lncRNAs-miRNAs-mRNAs., (© 2017 Stichting International Foundation for Animal Genetics.)
- Published
- 2017
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43. miR-143 regulates proliferation and differentiation of bovine skeletal muscle satellite cells by targeting IGFBP5.
- Author
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Zhang WR, Zhang HN, Wang YM, Dai Y, Liu XF, Li X, Ding XB, and Guo H
- Subjects
- Animals, Cattle, Cell Proliferation genetics, Gene Expression Regulation, Developmental, Muscle Development genetics, Muscle, Skeletal growth & development, Muscle, Skeletal metabolism, Signal Transduction, Carrier Proteins genetics, Cell Differentiation genetics, MicroRNAs genetics, Satellite Cells, Skeletal Muscle metabolism
- Abstract
Development of skeletal muscle is a complicated biological process regulated by various regulation factors and signal pathways. MicroRNAs (miRNAs) are novel gene regulators that control muscle cell development. microRNA-143 (miR-143) is highly expressed in skeletal muscle, and we found that miR-143 level is significantly increased during bovine skeletal muscle satellite cells (MSCs) differentiation process through microarray analysis and qRT-PCR detection. However, the function of miR-143 in bovine muscle development remained unclear. In our work, the functions of miR-143 in bovine MSCs myogenic differentiation were investigated. We discovered that IGFBP5 is directly regulated by miR-143 using a dual-luciferase reporter assay. Overexpression of miR-143 led to decreased level of IGFBP5 protein and restrained cell proliferation and differentiation, while downregulation of miR-143 resulted in increased levels of IGFBP5 protein and restrained cell proliferation but improved differentiation. IGFBP5, an important component of IGF signaling pathway, contributes greatly to bovine muscle cell development. A mechanism that miR-143 can regulate the proliferation and differentiation of bovine MSCs through changing expression of IGFBP5 was elucidated by our study.
- Published
- 2017
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44. 2-Nitropyrrole cross-coupling enables a second generation synthesis of the heronapyrrole antibiotic natural product family.
- Author
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Ding XB, Furkert DP, and Brimble MA
- Subjects
- Molecular Structure, Stereoisomerism, Streptomyces, Anti-Bacterial Agents chemical synthesis, Biological Products chemical synthesis, Pyrroles chemical synthesis, Pyrroles chemistry
- Abstract
The heronapyrroles are a family of antibiotic natural products containing the rare 2-nitropyrrole motif. We report here a second generation total synthesis that circumvents problems of selective pyrrole nitration and alkene formation that limited the utility of previous approaches. Stille sp
3 -sp2 cross coupling of a novel 2-nitropyrrole fragment was developed to install the key C7,8 olefin with complete regiochemical control. An unusual Hunsdiecker-type decarboxylative halogenation was also identified, providing access to the complex vinyl stannane coupling partners required for formation of the natural product.- Published
- 2016
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45. Nitropyrrole natural products: isolation, biosynthesis and total synthesis.
- Author
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Ding XB, Brimble MA, and Furkert DP
- Subjects
- Animals, Biological Products isolation & purification, Biological Products pharmacology, Humans, Biological Products chemical synthesis, Biological Products metabolism, Chemistry Techniques, Synthetic methods, Pyrroles chemistry
- Abstract
Nitropyrrole-containing natural products are relatively rare in nature. Known examples are limited to the β-nitropyrrole-containing pyrrolomycins and α-nitropyrrole-containing nitropyrrolins and heronapyrroles. Their unique structures and interesting bioactivity are of ongoing interest to the chemistry community. This review describes the isolation, biological activity, biosynthesis and chemical synthesis of nitropyrrole-containing natural products reported to date.
- Published
- 2016
- Full Text
- View/download PDF
46. Selection of reference genes in canine uterine tissues.
- Author
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Du M, Wang X, Yue YW, Zhou PY, Yao W, Li X, Ding XB, Liu XF, Guo H, and Ma WZ
- Subjects
- Animals, Dogs, Female, Pyometra genetics, Pyometra veterinary, Real-Time Polymerase Chain Reaction, Genetic Markers, Uterus metabolism
- Abstract
Real-time quantitative polymerase chain reaction (RT-qPCR) is usually employed in gene expression studies in veterinary research, including in studies on canine pyometra. Canine pyometra is a common clinical disease in bitches. When using RT-qPCR, internal standards, such as reference genes, are necessary to investigate relative gene expression by quantitative measurements of mRNA levels. The aim of this study was to evaluate the stability of reference genes and select reference genes suitable for canine pyometra studies. We collected 24 bitch uterine tissue samples, including five healthy and 19 pyometra infected samples. These were used to screen the best reference genes of seven candidate genes (18SrRNA, ACTB, B2M, GAPDH, HPRT, RPL13A, and YWHAZ). The method of KH Sadek and the GeNorm, Normfinder, BestKeeper, and RefFinder software were used to evaluate the stability of gene expression in both pyometra and healthy uterine samples. The results showed that the expression stability of the candidate gene in pyometra and healthy tissues differed. We showed that YWHAZ was the best reference gene, which could be used as an accurate internal control gene in canine pyometra studies. To further validate this recommendation, the expression profile of a target gene insulin-like growth factor 1 receptor gene (IGF1R) was investigated. We found that the expression of IGF1R was significantly altered when different reference genes were used. All reference genes identified in the present study will enable more accurate normalization of gene expression data in both pyometra infected and healthy uterine tissues.
- Published
- 2016
- Full Text
- View/download PDF
47. Promoter analysis of bovine cardiomyopathy-associated protein 1 gene.
- Author
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Sui GN, Liu ZW, Wang T, Li X, Ding XB, Liu XF, and Guo H
- Subjects
- Animals, Cardiomyopathies genetics, Cardiomyopathies pathology, Cattle, Cell Line, Genes, Reporter, Genetic Vectors, Humans, Mice, Transcriptional Activation genetics, Transfection methods, DNA-Binding Proteins genetics, Heart growth & development, Morphogenesis genetics, Promoter Regions, Genetic
- Abstract
The CMYA1 (cardiomyopathy-associated protein 1) is an actin-binding protein that plays a vital role in cardiac morphogenesis. CMYA1 is expressed specifically in the myocardial and skeletal muscle and is up-regulated in injured muscle. We therefore speculated that the bovine CMYA1 promoter might be muscle-specific. In this study, the promoter (+20/-1135) region of the bovine CMYA1 gene was cloned into a pEGFP-1 vector, and we found that the EGFP was observed only in C2C12 and myoblast cells. Thus, the CMYA1 promoter is muscle-specific. Thereafter, eight pGL3-basic vectors with various truncated CMYA1 promoter fragments were transfected into C2C12 cells, to identify the core promoter region using a Dual-Luciferase Reporter Assay System. The results showed that the promoter region from -457 to +20 bp was essential for CMYA1 to maintain the promoter activity, implying that this region may be the CMYA1 core promoter. We thus illustrate that the core promoter is muscle-specific. To evaluate the activity of the CMYA1 core promoter, the CMYA1 core and muscle creatine kinase (MCK) promoters were cloned into a pcDNA3.1 vector. The expression levels of their target genes were measured in C2C12 cells using real-time polymerase chain reaction. The CMYA1 promoter drove the expression of the target gene six times higher than did the MCK promoter. The results thus suggest that the CMYA1 promoter could be an effective muscle-specific promoter, which may be useful in further studies of cardiomyopathy treatment and transgenic animal research.
- Published
- 2016
- Full Text
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48. [Analysis on antiretroviral therapy efficacy for HIV/AIDS in Zhejiang province, 2009-2014].
- Author
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Zheng JL, Xu Y, He L, Jiang J, Zhang JF, Zhang WJ, Ding XB, and Yang JZ
- Subjects
- Adolescent, Adult, CD4 Lymphocyte Count, China epidemiology, Female, HIV Infections diagnosis, HIV Infections epidemiology, Heterosexuality, Humans, Kaplan-Meier Estimate, Logistic Models, Male, Marital Status, Mass Screening, Middle Aged, Retrospective Studies, Treatment Outcome, Young Adult, Antiretroviral Therapy, Highly Active methods, HIV Infections drug therapy, Health Services Accessibility, Viral Load drug effects
- Abstract
Objective: To analyze the efficacy of highly active antiretroviral therapy(HAART)for HIV/AIDS in Zhejiang province from 2009 to 2014., Methods: A retrospective cohort study was conducted among patients with access to HAART aged <15 years from 2009 to 2014 through descriptive epidemiological analysis on the patients' demographic characteristics, HAART efficacy. The immune recovery Kaplan-Meier curves were drawn by using baseline CD(4) T lymphocytes cell(CD(4))data. The influencing factors for virus suppression were analyzed by using logistic regression model., Results: There were 9 594 patients with access to HAART in Zhejiang from 2009 to 2014. The' average age of the patients was 38.7 years old, the male to female ratio was 4.11∶1. Heterosexual(55.9%)and homosexual(40.0%)contacts were the main transmission routes. Baseline CD(4) count 200-349 cells/μl was found in 45.4% of the patients, the median of the CD(4) count was 221(IQR: 123-298). The median of time for CD(4) recovery in patients with baseline CD(4) count <200 cells/μl was 3.48 and 11.58 times higher than the patients with baseline CD(4) count 200-349 cells/μl and baseline CD(4) count ≥350 cells/μl. Univariate and multivariate logistic regression analyses showed that marital status, HAART regimen, treatment miss in last week and CD(4) recovery were major influencing factors for HAART efficacy., Conclusions: HAART had good treatment effecacy in HIV/AIDS patients in Zhejiang. The baseline CD(4) count and adherence to HAART were the most important influencing factors. It is recommended to take measures to expand HIV screening and HAART coverage, conduct HAART adherence education, and strengthen the special care for high-risk groups to improve the HAART efficacy in Zhejiang province.
- Published
- 2016
- Full Text
- View/download PDF
49. MicroRNA-128 regulates the proliferation and differentiation of bovine skeletal muscle satellite cells by repressing Sp1.
- Author
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Dai Y, Zhang WR, Wang YM, Liu XF, Li X, Ding XB, and Guo H
- Subjects
- Animals, Cattle, RNA, Small Interfering genetics, Satellite Cells, Skeletal Muscle cytology, Sp1 Transcription Factor genetics, Cell Differentiation genetics, Cell Proliferation genetics, MicroRNAs genetics, Satellite Cells, Skeletal Muscle metabolism, Sp1 Transcription Factor metabolism
- Abstract
MicroRNAs (miRNAs) play essential roles in muscle cell proliferation and differentiation. The muscle-specific miRNAs miR-1 and miR-206 have been shown to regulate muscle development and promote myogenic differentiation; however, it is likely that a number of other miRNAs play important roles in regulating myogenesis as well. microRNA-128 (miR-128) has been reported to be highly expressed in brain and skeletal muscle, and we found that miR-128 is also up-regulated during bovine skeletal muscle satellite cell differentiation using microarray analysis and qRT-PCR. However, little is known about the functions of miR-128 in bovine skeletal muscle satellite cell development. In this study, we investigated the biological functions of miR-128 in bovine skeletal muscle cell development. Using a dual-luciferase reporter assay, we confirmed that miR-128 regulates the Sp1 gene. Over-expression of miR-128 reduced Sp1 protein levels and inhibited muscle satellite cell proliferation and differentiation. Inhibition of miR-128 increased Sp1 protein levels and promoted muscle satellite cell differentiation but also suppressed proliferation. Changes in miR-128 and Sp1 expression levels also affected the protein levels of MyoD and CDKN1A. Sp1, an activator of MyoD and a suppressor of CDKN1A, plays an important role in bovine muscle cell proliferation and differentiation. The results of our study reveal a mechanism by which miR-128 regulates bovine skeletal muscle satellite cell proliferation and myogenic differentiation via Sp1.
- Published
- 2016
- Full Text
- View/download PDF
50. WISP1 mediates hepatic warm ischemia reperfusion injury via TLR4 signaling in mice.
- Author
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Tong Y, Ding XB, Chen ZX, Jin SQ, Zhao X, Wang X, Mei SY, Jiang X, Wang L, and Li Q
- Subjects
- Adaptor Proteins, Vesicular Transport genetics, Adaptor Proteins, Vesicular Transport metabolism, Animals, CCN Intercellular Signaling Proteins genetics, Liver pathology, Male, Mice, Mice, Knockout, Proto-Oncogene Proteins genetics, Reperfusion Injury genetics, Reperfusion Injury pathology, Toll-Like Receptor 4 genetics, CCN Intercellular Signaling Proteins biosynthesis, Gene Expression Regulation, Liver metabolism, Proto-Oncogene Proteins biosynthesis, Reperfusion Injury metabolism, Signal Transduction, Toll-Like Receptor 4 metabolism
- Abstract
Wnt-induced secreted protein-1 (WISP1) is an extracellular matrix protein that has been reported in cancer researches. Our previous studies on WISP1 implied it could be a harmful mediator in septic mice. However, its role in liver ischemia reperfusion (I/R) injury is unknown. This study investigated the effects of WISP1 on liver I/R damage. Male C57BL/6 wild-type mice were used to undergo 60 min segmental (70%) ischemia. WISP1 expression was measured after indicated time points of reperfusion. Anti-WISP1 antibody was injected intraperitoneally to mice. Toll-like receptor 4 (TLR4) knockout mice and TIR-domain-containing adaptor inducing interferon-β (TRIF) knockout mice were adopted in this study. WISP1 was significantly enhanced after 6 h of reperfusion when compared with sham treated mice and significantly decreased either by TLR4 knockout mice or TRIF knockout mice. Anti-WISP1 antibody significantly decreased serum alanine aminotransferase (ALT), aspartate aminotransferase (AST), pathological changes and pro-inflammatory cytokine levels in the mice following I/R. Furthermore, significantly increased serum transaminase levels were found in C57 wild-type mice treated with recombinant WISP1 protein, but not found in TLR4 knockout or TRIF knockout mice subjected to liver I/R. Taken together, WISP1 might contribute to hepatic ischemia reperfusion injury in mice and possibly depends on TLR4/TRIF signaling.
- Published
- 2016
- Full Text
- View/download PDF
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