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Time-dependent metabolomics uncover dynamic metabolic adaptions in MCF-7 cells exposed to bisphenol A

《环境科学与工程前沿（英文）》 2023年 第17卷 第1期 doi: 10.1007/s11783-023-1604-5

摘要：

● Metabolomic temporal profiling of cells exposed to xenobiotics.

关键词： Metabolomics     BPA     MCF-7     Temporal profiling     Metabolic adaption     Dysregulation correlation    

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Mutation profiling of 16 candidate genes in

Yang Zhang, Fang Wang, Xue Chen, Wenjing Liu, Jiancheng Fang, Mingyu Wang, Wen Teng, Panxiang Cao, Hongxing Liu

《医学前沿（英文）》 2019年 第13卷 第2期   页码 229-237 doi: 10.1007/s11684-018-0616-1

摘要： This retrospective analysis aimed to investigate the mutation profile of 16 common mutated genes in acute myeloid leukemia (AML) patients. A total of 259 patients who were diagnosed of AML were enrolled in this study. Mutation profiling of 16 candidate genes were performed in bone marrow samples by using Sanger sequencing. We identified at least 1 mutation in 199 of the 259 samples (76.8%), and 2 or more mutations in 31.7% of samples. was the most common mutated gene (16.2%, 42/259), followed by (15.1%, 39/259), (14.7%, 38/259), and (13.5%, 35/259). Concurrence was observed in 97.1% of the mutated cases and in 29.6% of the double mutated cases. Distinct patterns of co-occurrence were observed for different hotspot mutations within the gene: mutations were associated with and/or mutations, whereas mutations co-occurred with mutations only. Concurrence was also observed in 86.6% of epigenetic regulation genes, most of which co-occurred with mutations. The results showed certain rules in the mutation profiling and concurrence of AML patients, which was related to the function classification of genes. Defining the mutation spectrum and mutation pattern of AML will contribute to the comprehensive assessment of patients and identification of new therapeutic targets.

关键词： leukemia     myeloid     acute     gene     mutation    

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Profiling influences of gene overexpression on heterologous resveratrol production in

Duo Liu,Bingzhi Li,Hong Liu,Xuejiao Guo,Yingjin Yuan

《化学科学与工程前沿（英文）》 2017年 第11卷 第1期   页码 117-125 doi: 10.1007/s11705-016-1601-3

摘要： Metabolic engineering of heterologous resveratrol production in faces challenges as the precursor L-tyrosine is stringently regulated by a complex biosynthetic system. We overexpressed the main gene targets in the upstream pathways to investigate their influences on the downstream resveratrol production. Single-gene overexpression and DNA assembly-directed multigene overexpression affect the production of resveratrol as well as its precursor -coumaric acid. Finally, the collaboration of selected gene targets leads to an optimal resveratrol production of 66.14±3.74 mg·L , 2.27 times higher than the initial production in YPD medium (4% glucose). The newly discovered gene targets expressing phosphoribosylanthranilate isomerase, expressing 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase, and expressing 4-coumaryl-CoA ligase show notable positive impacts on resveratrol production in .

关键词： resveratrol     aromatic amino acid     DNA assembly     metabolic engineering     gene overexpression    

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Realtime prediction of hard rock TBM advance rate using temporal convolutional network (TCN) with tunnel

Zaobao LIU; Yongchen WANG; Long LI; Xingli FANG; Junze WANG

《结构与土木工程前沿（英文）》 2022年 第16卷 第4期   页码 401-413 doi: 10.1007/s11709-022-0823-3

摘要： Real-time dynamic adjustment of the tunnel bore machine (TBM) advance rate according to the rock-machine interaction parameters is of great significance to the adaptability of TBM and its efficiency in construction. This paper proposes a real-time predictive model of TBM advance rate using the temporal convolutional network (TCN), based on TBM construction big data. The prediction model was built using an experimental database, containing 235 data sets, established from the construction data from the Jilin Water-Diversion Tunnel Project in China. The TBM operating parameters, including total thrust, cutterhead rotation, cutterhead torque and penetration rate, are selected as the input parameters of the model. The TCN model is found outperforming the recurrent neural network (RNN) and long short-term memory (LSTM) model in predicting the TBM advance rate with much smaller values of mean absolute percentage error than the latter two. The penetration rate and cutterhead torque of the current moment have significant influence on the TBM advance rate of the next moment. On the contrary, the influence of the cutterhead rotation and total thrust is moderate. The work provides a new concept of real-time prediction of the TBM performance for highly efficient tunnel construction.

关键词： hard rock tunnel     tunnel bore machine advance rate prediction     temporal convolutional networks     soft computing     construction big data    

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Temporal trend of mortality from major cancers in Xuanwei, China

null

《医学前沿（英文）》 2015年 第9卷 第4期   页码 487-495 doi: 10.1007/s11684-015-0413-z

摘要：

Although a number of studies have examined the etiology of lung cancer in Xuanwei County, China, other types of cancer in this county have not been reported systematically. This study aimed to investigate the temporal trend of eight major cancers in Xuanwei County using data from three mortality surveys (1973–1975, 1990–1992, and 2004–2005). The Chinese population in 1990 was used as a standard population to calculate age-standardized mortality rates. Cancers of lung, liver, breast, brain, esophagus, leukemia, rectum, and stomach were identified as the leading cancers in this county in terms of mortality rate. During the three time periods, lung cancer remained as the most common type of cancer. The mortality rates for all other types of cancer were lower than those of the national average, but an increasing trend was observed for all the cancers, particularly from 1990–1992 to 2004–2005. The temporal trend could be partly explained by changes in risk factors, but it also may be due to the improvement in cancer diagnosis and screening. Further epidemiological studies are warranted to systematically examine the underlying reasons for the temporal trend of the major cancers in Xuanwei County.

关键词： cancer     mortality     Xuanwei     temporal trend    

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The temporal changes of the concentration level of typical toxic organics in the river sediments around

Qiang Li, Xiong Xu, Yaoyao Fang, Ruiyang Xiao, Donghong Wang, Wenjue Zhong

《环境科学与工程前沿（英文）》 2018年 第12卷 第6期 doi: 10.1007/s11783-018-1054-7

摘要：

The current situation of typical organics in the sediments around Beijing was unclear.

56 kinds of typical toxic organics were detected in this article.

Historical data was compared with the data in this study.

The change of different organics in the sediments around Beijing was concluded.

关键词： Organic compounds     Endocrine disrupters     Sediments     Concentration     Temporal changes    

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Spatio-temporal variations of water quality in Yuqiao Reservoir Basin, North China

Yuan XU,Ruqin XIE,Yuqiu WANG,Jian SHA

《环境科学与工程前沿（英文）》 2015年 第9卷 第4期   页码 649-664 doi: 10.1007/s11783-014-0702-9

摘要： Fuzzy comprehensive assessment and multivariate statistical techniques including cluster analysis, discriminant analysis, principal component analysis, and factor analysis were applied to analyze the water quality status of Yuqiao Reservoir Basin, North China, for assessing its spatio-temporal variations and identifying potential pollution sources. In this paper, we considered data for 14 water quality parameters collected during 1990–2004 at 7 water quality monitoring sites. The results of fuzzy comprehensive assessment revealed that water quality in Yuqiao Reservoir Basin showed a downtrend from 1990 to 2001 with fluctuation, and a slowly upward trend after 2001. The major water quality belonged to Class III and IV. Besides, hierarchical cluster analysis divided 7 monitoring sites into two groups (Group A and B), and 12 months into three periods (low-flow (LF), normal-flow (NF), and high-flow (HF) period). Temp, pH, SS, T-har, DO, NO -N and TP were identified as significant variables affecting spatial variations, and Temp, pH and NO -N were identified as significant variables affecting temporal variations by discriminant analysis. Factor analysis identified four latent pollution sources for water quality variations: nutrient pollution, organic pollution, inorganic pollution, and natural pollution. Moreover, for Group A regions, pollution inputs mainly came from domestic wastewater and industrial sewage. For Group B regions, it is more likely that water pollution resulted from the combined effects of domestic wastewater, hospital wastewater, agriculture runoff, and fishpond discharge, as well as the incoming water from upstream.

关键词： Fuzzy comprehensive assessment     multivariate statistical analysis     water quality    

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The effect of texture and irrigation on the soil moisture vertical-temporal variability in an urban artificial

Xiaofeng ZHANG,Xu ZHANG,Guanghe LI

《环境科学与工程前沿（英文）》 2015年 第9卷 第2期   页码 269-278 doi: 10.1007/s11783-014-0672-y

摘要： Soil moisture variability in natural landscapes has been widely studied; however, less attention has been paid to its variability in the urban landscapes with respect to the possible influence of texture stratification and irrigation management. Therefore, a case study was carried out in the Beijing Olympic Forest Park to continuously monitor the soil in three typical profiles from 26 April to 11 November 2010. The texture stratification significantly affected the vertical distribution of moisture in the non-irrigated profile where moisture was mostly below field capacity. In the profile where irrigation was sufficient to maintain moisture above field capacity, gravity flow led to increased moisture with depth and thus eliminated the influence of texture. In the non-irrigated sites, the upper layer (above 80 cm) exhibited long-term moisture persistence with the time scale approximating the average rainfall interval. However, a coarse-textured layer weakened the influence of rainfall, and a fine-textured layer weakened the influence of evapotranspiration, both of which resulted in random noise-like moisture series in the deeper layers. At the irrigated site, frequent irrigation neutralized the influence of evapotranspiration in the upper layer (above 60 cm) and overshadowed the influence of rainfall in the deeper layer. As a result, the moisture level in the upper layer also behaved as a random noise-like series; whereas due to deep transpiration, the moisture of the deep layer had a persistence time-scale longer than a month, consistent with characteristic time-scales found for deep transpiration.

关键词： moisture vertical distribution     moisture temporal variation     texture stratification     irrigation     meteorological forcing     urban landscape    

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Spatial and Temporal Distribution of PM

Xiao-hong Chen,Xiang-bo Tang

《工程管理前沿（英文）》 2016年 第3卷 第2期   页码 171-181 doi: 10.15302/J-FEM-2016017

摘要： Utilizing the initial hourly monitoring data of PM concentrations at 23 monitoring sites across the Chang-Zhu-Tan city cluster between January 2013 and February 2014 that released in Real-time Air Quality Reporting System in Hunan Province, this paper draws diagrams and analyzes the change rule of the pollutants concentration over time. In addition, this paper studies the regional distribution of PM seasonal pollution in the vicinity of the monitoring sites using ArcGIS geographic information system with the Kriging interpolation method. On this basis, this paper puts forward some effective control strategies to cope with regional PM pollution combined with the information of industry distribution and development status in the Chang-Zhu-Tan city cluster.

关键词： PM2.5     spatial and temporal distribution     ArcGIS     the chang-Zhu-Tan city cluster    

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Comprehensive profiling of EBV gene expression in nasopharyngeal carcinoma through paired-end transcriptome

null

《医学前沿（英文）》 2016年 第10卷 第1期   页码 61-75 doi: 10.1007/s11684-016-0436-0

摘要：

The latent expression pattern of Epstein-Barr Virus (EBV) genes in nasopharyngeal carcinoma (NPC) has been extensively investigated, and the expression of several lytic genes in NPC has been reported. However, comprehensive information through EBV transcriptome analysis in NPC is limited. We performed paired-end RNA-seq to systematically and comprehensively characterize the expression of EBV genes in NPC tissue and C666-1 NPC cell line, which consistently carries EBV. In addition to the transcripts restricted to type II latency infection, the type III latency EBNA3s genes and a substantial number of lytic genes, such as BZLF1, BRLF1, and BMRF1, were detected through RNA-seq and were further verified in C666-1 cells and NPC tissue through real-time PCR. We also performed clustering analysis to classify NPC patient groups in terms of EBV gene expression, which presented two subtypes of NPC samples. Results revealed interesting patterns of EBV gene expression in NPC patients. This clustering was correlated with many signaling pathways, such as those related to heterotrimeric G-protein signaling, inflammation mediated by chemokine and cytokine signaling, ribosomes, protein metabolism, influenza infection, and ECM-receptor interaction. Our combined findings suggested that the expression of EBV genes in NPC is restricted not only to type II latency genes but also to type III latency and lytic genes. This study provided further insights into the potential role of EBV in the development of NPC.

关键词： Epstein-Barr virus     paired-end transcriptome sequencing     latency genes     lytic genes     nasopharyngeal carcinoma    

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Profiling and annotation combined method formultimedia application specificMPSoCperformance estimation

Kai HUANG,Xiao-xu ZHANG,Si-wen XIU,Dan-dan ZHENG,Min YU,De MA,Kai HUANG,Gang CHEN,Xiao-lang YAN

《信息与电子工程前沿（英文）》 2015年 第16卷 第2期   页码 135-151 doi: 10.1631/FITEE.1400239

摘要： Accurate and fast performance estimation is necessary to drive design space exploration and thus support important design decisions. Current techniques are either time consuming or not accurate enough. In this paper, we solve these problems by presenting a hybrid method for multimedia multiprocessor system-on-chip (MPSoC) performance estimation. A general coverage analysis tool GNU gcov is employed to profile the execution statistics during the native simulation. To tackle the complexity and keep the analysis and simulation manageable, the orthogonalization of communication and computation parts is adopted. The estimation result of the computation part is annotated to a transaction accurate model for further analysis, by which a gradual refinement of MPSoC performance estimation is supported. The implementation and its experimental results prove the feasibility and efficiency of the proposed method.

关键词： MPSoC     Gradual refinement     Native simulation     Performance estimation     Profiling     Annotation     Gcov    

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CLIMATE-CHANGE-INDUCED TEMPORAL VARIATION IN PRECIPITATION INCREASES NITROGEN LOSSES FROM INTENSIVE CROPPING

《农业科学与工程前沿（英文）》 2022年 第9卷 第3期   页码 457-464 doi: 10.15302/J-FASE-2022452

摘要：

● A simple model was used to evaluate how increasing temporal variability in precipitation influences crop yields and nitrogen losses.

关键词： crop yield     fertilizer timing     nitrogen loss     precipitation variability     toy model    

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Machine learning for detecting mesial temporal lobe epilepsy by structural and functional neuroimaging

Baiwan Zhou, Dongmei An, Fenglai Xiao, Running Niu, Wenbin Li, Wei Li, Xin Tong, Graham J Kemp, Dong Zhou, Qiyong Gong, Du Lei

《医学前沿（英文）》 2020年 第14卷 第5期   页码 630-641 doi: 10.1007/s11684-019-0718-4

摘要： Mesial temporal lobe epilepsy (mTLE), the most common type of focal epilepsy, is associated with functional and structural brain alterations. Machine learning (ML) techniques have been successfully used in discriminating mTLE from healthy controls. However, either functional or structural neuroimaging data are mostly used separately as input, and the opportunity to combine both has not been exploited yet. We conducted a multimodal ML study based on functional and structural neuroimaging measures. We enrolled 37 patients with left mTLE, 37 patients with right mTLE, and 74 healthy controls and trained a support vector ML model to distinguish them by using each measure and the combinations of the measures. For each single measure, we obtained a mean accuracy of 74% and 69% for discriminating left mTLE and right mTLE from controls, respectively, and 64% when all patients were combined. We achieved an accuracy of 78% by integrating functional data and 79% by integrating structural data for left mTLE, and the highest accuracy of 84% was obtained when all functional and structural measures were combined. These findings suggest that combining multimodal measures within a single model is a promising direction for improving the classification of individual patients with mTLE.

关键词： mesial temporal lobe epilepsy     functional magnetic resonance imaging     structural magnetic resonance imaging     machine learning     support vector machine    

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Assessment of temporal and spatial variations in water quality using multivariate statistical methods

Xue LI,Pengjing LI,Dong WANG,Yuqiu WANG

《环境科学与工程前沿（英文）》 2014年 第8卷 第6期   页码 895-904 doi: 10.1007/s11783-014-0736-z

摘要： This study evaluated the temporal and spatial variations of water quality data sets for the Xin'anjiang River through the use of multivariate statistical techniques, including cluster analysis (CA), discriminant analysis (DA), correlation analysis, and principal component analysis (PCA). The water samples, measured by ten parameters, were collected every month for three years (2008–2010) from eight sampling stations located along the river. The hierarchical CA classified the 12 months into three periods (First, Second and Third Period) and the eight sampling sites into three groups (Groups 1, 2 and 3) based on seasonal differences and various pollution levels caused by physicochemical properties and anthropogenic activities. DA identified three significant parameters (temperature, pH and ) to distinguish temporal groups with close to 76% correct assignment. The DA also discovered five parameters (temperature, electricity conductivity, total nitrogen, chemical oxygen demand and total phosphorus) for spatial variation analysis, with 80.56% correct assignment. The non–parametric correlation coefficient (Spearman R) explained the relationship between the water quality parameters and the basin characteristics, and the GIS made the results visual and direct. The PCA identified four PCs for Groups 1 and 2, and three PCs for Group 3. These PCs captured 68.94%, 67.48% and 70.35% of the total variance of Groups 1, 2 and 3, respectively. Although natural pollution affects the Xin'anjiang River, the main sources of pollution included agricultural activities, industrial waste, and domestic wastewater.

关键词： Xin'anjiang River     multivariable statistical analysis     temporal variation     spatial variation     water quality    

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Distribution and temporal variability of the solar resource at a site in south-east Norway

Muyiwa S. ADARAMOLA

《能源前沿（英文）》 2016年 第10卷 第4期   页码 375-381 doi: 10.1007/s11708-016-0426-6

摘要： Globally, solar energy is expected to play a significant role in the changing face of energy economies in the near future. However, the variability of this resource has been the main barrier for solar energy development in most locations around the world. This paper investigated the distribution and variability of solar radiation using the a 10-year (2006 to 2015) data collected at Sørås meteorological station located at latitude 59° 39′ N and longitude 10° 47′E, about 93.3 m above sea level (about 30 km from Oslo), in south-eastern part of Norway. It is found that on annual basis, the total number of days with a global solar radiation of less than 1 kWh/(m ·d) is 120 days while the total number of days with an expected global solar radiation greater than 3 kWh/(m ·d) is 156 days (42.74%) per year. The potential energy output from a horizontally placed solar collector in these 156 days is approximately 75% of the estimated annual energy output. In addition, it is found that the inter-annual coefficient of variation of the global solar radiation is 4.28%, while that of diffuse radiation is 4.96%.

关键词： coefficient of variation     global solar radiation     diffuse ratio     albedo     PV energy systems    

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标题 作者 时间 类型 操作

Time-dependent metabolomics uncover dynamic metabolic adaptions in MCF-7 cells exposed to bisphenol A

期刊论文

Mutation profiling of 16 candidate genes in

Yang Zhang, Fang Wang, Xue Chen, Wenjing Liu, Jiancheng Fang, Mingyu Wang, Wen Teng, Panxiang Cao, Hongxing Liu

期刊论文

Profiling influences of gene overexpression on heterologous resveratrol production in

Duo Liu,Bingzhi Li,Hong Liu,Xuejiao Guo,Yingjin Yuan

期刊论文

Realtime prediction of hard rock TBM advance rate using temporal convolutional network (TCN) with tunnel

Zaobao LIU; Yongchen WANG; Long LI; Xingli FANG; Junze WANG

期刊论文

Temporal trend of mortality from major cancers in Xuanwei, China

null

期刊论文

The temporal changes of the concentration level of typical toxic organics in the river sediments around

Qiang Li, Xiong Xu, Yaoyao Fang, Ruiyang Xiao, Donghong Wang, Wenjue Zhong

期刊论文

Spatio-temporal variations of water quality in Yuqiao Reservoir Basin, North China

Yuan XU,Ruqin XIE,Yuqiu WANG,Jian SHA

期刊论文

The effect of texture and irrigation on the soil moisture vertical-temporal variability in an urban artificial

Xiaofeng ZHANG,Xu ZHANG,Guanghe LI

期刊论文

Spatial and Temporal Distribution of PM

Xiao-hong Chen,Xiang-bo Tang

期刊论文

Comprehensive profiling of EBV gene expression in nasopharyngeal carcinoma through paired-end transcriptome

null

期刊论文

Profiling and annotation combined method formultimedia application specificMPSoCperformance estimation

Kai HUANG,Xiao-xu ZHANG,Si-wen XIU,Dan-dan ZHENG,Min YU,De MA,Kai HUANG,Gang CHEN,Xiao-lang YAN

期刊论文

CLIMATE-CHANGE-INDUCED TEMPORAL VARIATION IN PRECIPITATION INCREASES NITROGEN LOSSES FROM INTENSIVE CROPPING

期刊论文

Machine learning for detecting mesial temporal lobe epilepsy by structural and functional neuroimaging

Baiwan Zhou, Dongmei An, Fenglai Xiao, Running Niu, Wenbin Li, Wei Li, Xin Tong, Graham J Kemp, Dong Zhou, Qiyong Gong, Du Lei

期刊论文

Assessment of temporal and spatial variations in water quality using multivariate statistical methods

Xue LI,Pengjing LI,Dong WANG,Yuqiu WANG

期刊论文

Distribution and temporal variability of the solar resource at a site in south-east Norway

Muyiwa S. ADARAMOLA

期刊论文