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Inference and prioritization of tissue-specific regulons in Arabidopsis and Oryza

aBIOTECH 2024年第3期5卷 309-324页

作者： Honggang Dai Yaxin Fan Yichao mei ling-ling Chen Junxiang Gao Hubei Key Laboratory of Agricultural Bioinformatics College of InformaticsHuazhong Agricultural UniversityWuhan430070China State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources College of Life Science and TechnologyGuangxi UniversityNanning530004China

A regulon refers to a group of genes regulated by a transcription factor binding to regulatory motifs to achieve specific biological *** infer tissue-specific gene regulons in Arabidopsis,we developed a novel pipeline named *** utilizes a gene expression matrix that includes 3400 Arabidopsis transcriptomes to make initial predictions about the regulatory relationships between transcription factors(TFs)and target genes(TGs)using co-expression *** further improves these anticipated interactions by integrating TF binding site enrichment analysis to eliminate false positives that are only supported by expression *** further trained a graph convolutional network with 133 transcription factors,supported by ChIP-seq,as positive samples,to learn the regulatory logic between TFs and TGs to improve the accuracy of the regulatory *** evaluate the functionality of InferReg,we utilized it to discover tissue-specific regulons in 5 Arabidopsis tissues:flower,leaf,root,seed,and *** ranked the activities of regulons for each tissue based on reliability using Borda ranking and compared them with existing *** results demonstrated that InferReg not only identified known tissue-specific regulons but also discovered new *** applying InferReg to rice expression data,we were able to identify rice tissue-specific regulons,showing that our approach can be applied more *** used InferReg to successfully identify important regulons in various tissues of Arabidopsis and Oryza,which has improved our understanding of tissue-specific regulations and the roles of regulons in tissue differentiation and development.

关键词： Transcriptional regulation Graph convolutional network Tissue-specific Regulon Transcription factor

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肺动脉栓塞行低对比剂肺动脉CTA成像检查的可行性评价及应用剂量对检查结果的影响

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罕少疾病杂志 2025年第1期32卷 71-73页

作者：刘勇玲王红梅焦作市第二人民医院CT室河南焦作454000

目的分析为肺动脉栓塞患者实施低剂量肺动脉CTA成像检查的临床可行性以及辐射剂量高低对临床检查结果的影响。方法选取我院2019.10至2023.4月期间收治的156例肺动脉栓塞患者为研究对象,对所有患者实施CTA成像检查,根据随机数表法将所... 详细信息

目的分析为肺动脉栓塞患者实施低剂量肺动脉CTA成像检查的临床可行性以及辐射剂量高低对临床检查结果的影响。方法选取我院2019.10至2023.4月期间收治的156例肺动脉栓塞患者为研究对象,对所有患者实施CTA成像检查,根据随机数表法将所有患者分为对照组(常规剂量)及观察组(低剂量),对两组患者的MSCT图像结果进行观察对比,评估两组血管的强化情况及图像质量。结果经对比后发现两组所应用的剂量均符合临床评价工作标准,对比结果无统计学差异(P>0.05);对照组强化后的肺动脉主干CT数值均高于观察组(P0.05)。结论针对肺动脉栓塞患者,可为其实施低对比剂肺动脉CTA检查,低剂量CTA检查仍能获取较为理想的图像质量,为临床诊断工作提供客观可靠的肺动脉影像数据。

关键词：肺动脉栓塞低对比剂肺动脉CTA 成像检查辐射剂量

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Localization and Dynamic Change of Saikosaponin in Root of Bupleurum chinense

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Journal of Integrative Plant Biology 2008年第8期50卷 951-957页

作者： ling-ling tan Xia Cai Zheng-Hai Hu Xi-Lu Ni Key Laboratory of Resource Biology and Biotechnology in West China (Northwest University) Ministry of Education Xi'an 710069 China Ningxia Forestry Institute Yinchuan 750004 China

Anatomical, histochemical and phytochemical methods were used to investigate the structure, the localization and content changes of total saikosaponin and saikosaponin-a of the roots of Bupleurum chinense DC. at different developmental stages. Results showed that saikosaponin was mainly distributed in pericycle and primary phloem in the young root; but in the mature root, it was mainly distributed in vascular cambium and secondary phloem. During the whole growth period from the pre-blossom, blossom, fruit, and fruit mature periods until the pre-withering period, it was in the fruit mature period that both the total saikosaponin content and the saikosaponin-a content reached the highest level. So the last 20 d of October was considered as the right collecting season for the drug of B. chinense. In addition, the quality of 1-year-old drug was better than that of 2-year-old drug due to its higher saikosaponin content. On the other hand, judging from the external characteristics of the drug, the one with an acerose taproot and more lateral roots was of better quality. The results offered theoretical bases for selecting medicinal material of high quality and determining the most appropriate harvesting stage and part of B. chinense.

关键词： Bupleurum chinense content dynamic change localization saikosaponin-a structure of root total saikosaponin

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菰米研究现状及产业发展趋势

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西南大学学报（自然科学版） 2025年第1期47卷 73-82页

作者：张玉杨狄芯芯练银银谭斌王梅索化夷西南大学食品科学学院重庆400715 西南大学食品科学与工程国家实验教学示范中心重庆400715 国家粮食和物资储备局科学研究院北京100037 重庆市蚕业科学技术研究院重庆400799

菰米作为营养均衡的无麸质全谷物食品,含有丰富的营养物质,具有重要的营养、保健和医学价值。该文系统总结了近年来在菰米的营养成分和加工应用方面的研究进展,指出菰米中富含的营养物质主要有碳水化合物、蛋白质、脂质、维生素、酚类... 详细信息

菰米作为营养均衡的无麸质全谷物食品,含有丰富的营养物质,具有重要的营养、保健和医学价值。该文系统总结了近年来在菰米的营养成分和加工应用方面的研究进展,指出菰米中富含的营养物质主要有碳水化合物、蛋白质、脂质、维生素、酚类化合物、植物甾醇、γ-谷维素和γ-氨基丁酸等,具有抗氧化和抗心脑血管疾病等活性。菰米现有加工方式单一,应用处于初级阶段,开展菰米新加工方式研究,拓展其应用特性是当前该领域的重要研究任务。展望了未来我国菰米深入研究与加工应用的发展方向,未来菰米需选育优良品种、扩大种植率;菰米加工可从主食食品、休闲食品和发酵食品三大类进行研发,也可作为膳食补充剂添加进食品中,提升产品营养价值。

关键词：菰米营养成分生物活性成分加工方式开发

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cgRNASP-CN: a minimal coarse-grained representation-based statistical potential for RNA 3D structure evaluation

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Communications in Theoretical Physics 2022年第7期74卷 129-137页

作者： ling Song Shixiong Yu Xunxun Wang Ya-Lan tan Zhi-Jie tan Department of Physics and Key Laboratory of Artificial Micro&Nano-structures of Education School of Physics and TechnologyWuhan UniversityWuhan 430072China Research Center of Nonlinear Science School of Mathematical and Physical SciencesWuhan Textile UniversityWuhan 430073China

Knowledge of RNA 3-dimensional(3 D) structures is critical to understand the important biological functions of RNAs, and various models have been developed to predict RNA 3 D structures in silico. However, there is still lack of a reliable and efficient statistical potential for RNA 3 D structure evaluation. For this purpose, we developed a statistical potential based on a minimal coarse-grained representation and residue separation, where every nucleotide is represented by C4’ atom for backbone and N1(or N9) atom for base. In analogy to the newly developed all-atom rsRNASP, cgRNASP-CN is composed of short-ranged and long-ranged potentials, and the short-ranged one was involved more subtly. The examination indicates that the performance of cgRNASP-CN is close to that of the all-atom rsRNASP and is superior to other top all-atom traditional statistical potentials and scoring functions trained from neural networks, for two realistic test datasets including the RNA-Puzzles dataset. Very importantly,cgRNASP-CN is about 100 times more efficient than existing all-atom statistical potentials/scoring functions including rsRNASP. cgRNASP-CN is available at website: https://***/tan-group/cgRNASP-CN.

关键词： RNA structure prediction statistical potential structure evaluation

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Piezoelectric and flexoelectric effects of DNA adsorbed films on microcantilevers

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Applied Mathematics and Mechanics(English Edition) 2023年第9期44卷 1547-1562页

作者： Yuan YANG Nenghui ZHANG Hanlin LIU Jiawei ling Zouqing tan Shanghai Institute of Applied Mathematics and Mechanics Shanghai Key Laboratory of Mechanics in Energy EngineeringSchool of Mechanics and Engineering ScienceShanghai UniversityShanghai 200072China School of Mechanical Engineering and Rail Transit Changzhou UniversityChangzhou 213164Jiangsu ProvinceChina

DNA-based biosensors have played a huge role in many areas,especially in current global coronavirus ***,there is a great difficulty in the characterization of piezoelectric and flexoelectric coefficients of the nanoscale DNA film,because the existing experimental methods for hard materials are almost *** addition,the relevant theoretical models for DNA films only consider a single effect without clarifying the difference between the two electromechanical effects on device detection *** work aims to present multiscale models for DNA-microcantilever experiments to clarify the competitive mechanism in piezoelectric and flexoelectric effects of DNA films on detection ***,a Poisson-Boltzmann(PB)equation is used to predict the potential distribution due to the competition between fixed phosphate groups and mobile salt ions in DNA ***,a macroscopic piezoelectric/flexoelectric constitutive equation of the DNA film and a mesoscopic free energy model of the DNA solution are combined to analytically predict the electromechanical coefficients of the DNA film and the relevant microcantilever signals by the deformation equivalent method and Zhang’s two-variable ***,the effects of detection conditions on microscopic interactions,electromechanical coupling coefficients,and deflection signals are *** results not only agree well with the experimental observations,but also reveal that the piezoelectric and flexoelectric effects of the DNA film should be equivalently modeled when interpreting microcantilever detection *** insights might provide opportunities for the microcantilever biosensor with high sensitivity.

关键词： DNA microcantilever biosensor electromechanical coupling effect flexo-electricity piezoelectricity multiscale model

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Spermatocytic tumor:A rare case report

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World Journal of Clinical Cases 2021年第35期9卷 11115-11121页

作者： mei-ling Hao Chun-Hui Li Department of Pathology Chengde Medical College Affiliated HospitalChengde 067000Hebei ProvinceChina

BACKGROUND Spermatocytic tumor is a rare,malignant neoplasm of the *** the prognosis for this tumor type is favorable,accurate diagnosis and differentiation from other malignant testicular neoplasms(classic seminoma and lymphoma)are *** add to the existing literature on the diagnosis of spermatocytic tumor,herein we report the detailed clinical and histopathologic findings for a case that we *** SUMMARY A 60-year-old Chinese man presented with a solid mass in the right *** mass was surgically removed and spermatocytic tumor was *** microscopy,the tumor cells displayed an unusual arrangement in lobules,presenting a pseudo-glandular *** summarize and compare the diagnostic features of this tumor and those of the differential diagnoses,we report our case findings and those mentioned in the literature for various testicular *** imaging methods can detect masses early in development,their diagnostic capabilities are ***,histopathology,and immunohistochemistry are necessary for confirmatory *** It is important to identify and review the key diagnostic features of spermatocytic tumor.

关键词： Spermatocytic tumor Germ cell tumor Immunohistochemistry Pseudoglandular Case report

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Mild cognitive impairment in Parkinson’s disease:a distinct clinical entity?

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Translational Neurodegeneration 2017年第1期6卷 225-231页

作者： Ming-Ching Wen ling ling Chan Louis C.S.tan Eng King tan Department of Research National Neuroscience InstituteSingaporeSingapore Department of Neurology National Neuroscience Institute11 Jalan Tan Tock SengSingapore 308433Singapore Department of Diagnostic Radiology Singapore General HospitalSingaporeSingapore Duke-NUS Medical School SingaporeSingapore

Background:Mild cognitive impairment in Parkinson’s disease(PD-MCI)is a common clinical *** its pathology and clinical features is important for early intervention before the onset of *** the past,variable definitions and differences in neuropsychological batteries generated divergent results of the affected cognitive *** body:The introduction of PD-MCI criteria by the Movement Disorders Society(MDS)Task Force provides a more uniform system for defining and measuring PD-MCI and may improve the validity of future ***-MCI is likely to be heterogeneous since it can coexist with Alzheimer’s disease and/or Lewy body pathologies in *** of neuropsychiatric disturbances,such as depression,anxiety and apathy,are associated with PD with or without *** addition,cognitive reserve formed by patients’unique life experiences may influence the outward cognitive performance despite the presence of the aforementioned pathogeneses and hence alter the diagnosis of ***:The overlap of cognitive impairment across different neurodegenerative diseases suggests that PD-MCI is likely to result from a mixture of complex pathophysiologies,rather than being a distinct pathologic *** MCI from other organic symptoms in PD would facilitate novel therapeutic strategies.

关键词： Mild cognitive impairment Parkinson’s disease Alzheimer disease Lewy body Neuropsychiatric comorbidities Cognitive reserve

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Ni-catalyzed cross-electrophile alkyl-alkyl coupling reactions

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Science China Chemistry 2025年

作者： Li-Xu You Lan Tian Chun-ling Guo Shun-Xi Li Yu-Cheng Liu Yu-Long Li Wei Shu College of Chemistry and Environmental Engineering Key Laboratory of Green Catalysis of Higher Education Institutes of Sichuan Sichuan University of Science and Engineering Guangming Advanced Research Institute Shenzhen Grubbs Institute Department of Chemistry and Guangdong Provincial Key Laboratory of Catalysis Southern University of Science and Technology

Introducing saturated carbon-carbon bonds into organic molecules significantly increases the three-dimensional configuration,thus altering the physical and chemical properties as well as the functions of molecules. Transition-metal-catalyzed carboncarbon cross-couplings represent one of the most straightforward, efficient and modular alternatives to build saturation in a single step. However, the efficient construction of alkyl-alkyl bonds remains a formidable challenge due to the precise manipulation of multiple alkyl metallic intermediates as well as associated competitive side reactions and selectivity control. Over the past years, Ni-catalyzed cross-coupling under reductive conditions has gained more and more attention for alkyl-alkyl crosscoupling partially attributing to the low-valent state of metal centers under reducing conditions, which suppresses the competitive β-hydride elimination process, thus facilitating the formation of alkyl-alkyl bonds. In this review, the initiative and progress of Ni-catalyzed cross-electrophile alkyl-alkyl cross-coupling, including the efforts in racemic and enantioselective formation of alkyl-alkyl bonds, have been summarized and discussed. Moreover, the challenges and further opportunities in this area have also been discussed.

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Effects of Low-dose and High-dose Rifaximin in the Treatment of Covert Hepatic Encephalopathy

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Journal of Clinical and Translational Hepatology 2022年第6期10卷 1099-1106页

作者： Wei tan Jian Wang Pei-mei Shi ling-mei Feng Jian Shi Bei-Fang Ning Zong-Li Yuan Xin Zeng Wei-Fen Xie Department of Gastroenterology Changzheng HospitalNaval Medical UniversityShanghaiChina Department of Gastro-enterology Shanghai East HospitalTongji University School of MedicineShanghaiChina

Background and Aims:Rifaximin is effective in prevent-ing and treating hepatic encephalopathy(HE).This study aimed to investigate the efficacy and safety of different dosages of rifaximin in the treatment of cirrhotic patients with covert HE(CHE).Methods:In this single-center,ran-domized,controlled,open-label study,CHE was diagnosed using a combination of the psychometric HE score and the EncephalApp Stroop *** patients with CHE were recruited and randomly assigned to low-dose rifaximin 800 mg/day,high-dose rifaximin(1,200 mg/day),and control groups,and were treated for 8 *** sickness impact profile(SIP)scale was used to evaluate the health-relat-ed quality of life(HRQOL)of *** patients were included in the study,12 were assigned to the low-dose group,14 to the high-dose group,and 14 patients to the control ***:The percentage of patients with CHE reversal was significantly higher in both the low-dose(41.67%,5/12)and high-dose(57.14%,8/14)groups than in the control group(7.14%,1/14)at 8 weeks(p=0.037 and p=0.005,respectively).In addition,both doses of ri-faximin resulted in significant improvement of the total SIP score compared with the control *** were no sig-nificant differences in the CHE reversal rate,total SIP score improvement,and incidence of adverse event between the low-dose and high-dose groups(p>0.05).Conclusions:Low-dose rifaximin reverses CHE and improves HRQOL in cirrhotic patients with comparable effects and safety to high-dose rifaximin.

关键词： Single-center open-label study Randomized prospective study Liver cirrhosis Covert hepatic encephalopathy Rifaximin

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