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| 1 | A draft sequence of the rice (Oryza sativa ssp. indica) genome显示文摘The sequence of the rice genome holds fundamental information for its biology, including physiology, genetics, development, and evolution, as well as information on many beneficial phenotypes of economic significance. Using a 'whole genome shotgun' approach, we have pro-duced a draft rice genome sequence of Oryza sativa ssp. in-dica, the major crop rice subspecies in China and many other regions of Asia. The draft genome sequence is constructed from over 4.3 million successful sequencing traces with an accumulative total length of 2214.9 Mb. The initial assembly of the non-redundant sequences reached 409.76 Mb in length, based on 3.30 million successful sequencing traces with a total length of 1797.4 Mb from an indica variant cultivar 93-11, giving an estimated coverage of 95.29% of the rice genome with an average base accuracy of higher than 99%. The coverage of the draft sequence, the randomness of the sequence distribution, and the consistency of BIG-ASSEM-BLER, a custom-designed software package | YU Jun, HU Songnian, WANG Jun,LI Songgang WONG Ka-Shu Gane, LIU Bin,DENG Yajun, DAI Li, ZHOU Yan,ZHANG Xiuqing, CAO Mengliang, LIU Jing,SUN Jiandong , TANG Jiabin, CHEN Yanjiong,HUANG Xiaobing, LIN Wei, YE Chen, TONG Wei,CONG Lijuan, GENG Jianing, HAN Yujun, LI Lin,LI Wei, HU Guangqiang, HUANG Xiangang,LI Wenjie, LI Jian, LIU Zhanwei, LI Long,LIU Jianping, Ql Qiuhui, LIU Jinsong, LI Li,WANG Xuegang, LU Hong, WU Tingling,ZHU Miao, Nl Peixiang, HAN Hua, DONG Wei,REN Xiaoyu, FENG Xiaoli, GUI Peng,LI Xianran, WANG Hao, XU Xin, ZHAI Wenxue,XU Zhao, ZHANG Jinsong, HE Sijie,ZHANG Jianguo, XU Jichen, ZHANG Kunlin,ZHENG Xianwu, DONG Jianhai, ZENG Wanyong,TAO Lin, CHEN Xuewei, HE Jun, LIU Daofeng,TIAN Wei, TIAN Chaoguang, XIA Hongai,LI Gang, GAO Hui, LI Ping, CHEN Wei ,WANG Xudong, ZHANG Yong, HU Jianfei,WANG Jing, LIU Song, YANG Jian,ZHANG Guangyu, XIONG Yuqing, LI Zhijie,MAO Long, ZHOU Chengshu, ZHU Zhen,CHEN Runsheng, HAO Bailin,ZHENG Weimou, CHEN Shouyi, QUO Wei,LI Guojie, LIU Siqi, HUANG Guyang,TAO Ming, WANG Jian, ZHU Lihuang,YUAN Longping& YANG HuanmingBeijing Genomics Institute/Center of Genomics & Bioinformatics, Chinese Academy of Sciences, Beijing 101300, China Hangzhou Genomics Institute/Institute of Bioinformatics of Zhejiang University/Key Laboratory of Bioinformatics of Zhejiang Province, Hangzhou 310007, China Institute of Genetics, Chinese Academy of Sciences, Beijing 100101, China National Hybrid Rice R & D Center, Changsha 410125, China Laboratory of Bioinformatics, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China College of Life Sciences, Peking University, Beijing 100871, China Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing 1Q0080, China Digital China Ltd., Beijing 100080, China Institute of Computing Technology, Chinese Academy of Sciences, Beijing 100080, China Medical College, Xi’an Jiaotong University, Xi’an 710061, ChinaThese authors contributed equally to this work.Corresponding author.Corresponden | 2001 | Chinese Science Bulletin2001，46，23： | 6 |
| 2 | The RppC-AvrRppC NLR-effector interaction mediates the resistance to southern corn rust in maize显示文摘Southern corn rust(SCR),caused by the fungal pathogen Puccinia polysora,is a major threat to maize pro-duction worldwide.Efficient breeding and deployment of resistant hybrids are key to achieving durable control of SCR.Here,we report the molecular cloning and characterization of RppC,which encodes an NLR-type immune receptor and is responsible for a major SCR resistance quantitative trait locus.Further-more,we identified the corresponding avirulence effector,AvrRppC,which is secreted by P.polysora and triggers RppC-mediated resistance.Allelic variation of AvrRppC directly determines the effectiveness of RppC-mediated resistance,indicating that monitoring of AvrRppC variants in the field can guide the rational deployment of RppC-containing hybrids in maize production.Currently,RppC is the most frequently deployed SCR resistance gene in China,and a better understanding of its mode of action is crit-ical for extending its durability. | Ce Deng April Leonard James Cahill Meng Lv Yurong Li Shawn Thatcher Xueying Li Xiaodi Zhao Wenjie Du Zheng Li Huimin Li Victor Llaca Kevin Fengler Lisa Marshall Charlotte Harris Girma Tabor Zhimin Li Zhiqiang Tian Qinghua Yang Yanhui Chen Jihua Tang Xintao Wang Junjie Hao Jianbing Yan Zhibing Lai Xiaohong Fei Weibin Song Jinsheng Lai Xuecai Zhang Guoping Shu Yibo Wang Yuxiao Chang Weiling Zhu Wei Xiong Juan Sun Bailin Li Junqiang Ding | 2022 | Molecular Plant2022，15，5： | 6 |
| 3 | Metallogenic Age of Dapinggou Gold Deposit in Northern Altun Area, Northwestern China显示文摘Studying the metallogenic age of Dapinggou gold deposit may provide important material not only for the study of metallization and the further prospecting of gold deposits but also for research into tectonic evolution in the Altun area. In this study, we used Rb-Sr isotopic dating method of fluid inclusion in the Au-bearing quartz, combining field investigation, REE, sulfur isotopes, lead isotopes, strontium isotopes and hydrogen-oxygen isotope, to determine the metallogenic age of the Dapinggou gold deposit. The only newly-discovered medium-sized gold deposit in the northern Altun area, Dapinggou gold deposit, is controlled by a ductile shear zone. It is characterized by mainly altered mylonite-types with a little K-feldspar quartz vein-types. Data from REE, sulfur isotopes, lead isotopes and strontium isotopes show that the source materials of the deposit were derived mainly from the metamorphic rocks. The data from the inclusion and hydrogen-oxygen isotope indicate that the ore-forming fluid came mainly from dynamic metamorphic water and partly from remelting magmatic water, with a little influence from meteoric water. The density of the ore-forming fluid is 0.791-0.971 g/cm3 and it contains 2.36 %-5.5 % salinity. The gold deposit was formed at 1.61-2.68 km below the surface at a temperature of 198-290 ℃ and a pressure of (420-700)×105 Pa. The isotopic age from the Rb-Sr isochron of fluid inclusion in quartz is 487 Ma, which indicates that the mineralization occurred in the early Caledonian epoch. The study on the metallogenic age of Dapinggou gold deposit may provide important material not only for the study of metallization and the further prospecting of gold deposits but also for research into tectonic evolution in the Altun area. | Chen Bailin Wang Xiaofeng Yang Yi Chen Xuanhua | 2005 | Journal of China University of Geosciences2005，16，4： | 4 |
| 4 | Learning Context-based Embeddings for Knowledge Graph Completion显示文摘Purpose:Due to the incompleteness nature of knowledge graphs(KGs),the task of predicting missing links between entities becomes important.Many previous approaches are static,this posed a notable problem that all meanings of a polysemous entity share one embedding vector.This study aims to propose a polysemous embedding approach,named KG embedding under relational contexts(ContE for short),for missing link prediction.Design/methodology/approach:ContE models and infers different relationship patterns by considering the context of the relationship,which is implicit in the local neighborhood of the relationship.The forward and backward impacts of the relationship in ContE are mapped to two different embedding vectors,which represent the contextual information of the relationship.Then,according to the position of the entity,the entity’s polysemous representation is obtained by adding its static embedding vector to the corresponding context vector of the relationship.Findings:ContE is a fully expressive,that is,given any ground truth over the triples,there are embedding assignments to entities and relations that can precisely separate the true triples from false ones.ContE is capable of modeling four connectivity patterns such as symmetry,antisymmetry,inversion and composition.Research limitations:ContE needs to do a grid search to find best parameters to get best performance in practice,which is a time-consuming task.Sometimes,it requires longer entity vectors to get better performance than some other models.Practical implications:ContE is a bilinear model,which is a quite simple model that could be applied to large-scale KGs.By considering contexts of relations,ContE can distinguish the exact meaning of an entity in different triples so that when performing compositional reasoning,it is capable to infer the connectivity patterns of relations and achieves good performance on link prediction tasks.Originality/value:ContE considers the contexts of entities in terms of their positions in triples and the relationships they link to.It decomposes a relation vector into two vectors,namely,forward impact vector and backward impact vector in order to capture the relational contexts.ContE has the same low computational complexity as TransE.Therefore,it provides a new approach for contextualized knowledge graph embedding. | Fei Pu Zhongwei Zhang Yan Feng Bailin Yang | 2022 | Journal of Data and Information Science2022，7，2： | 3 |
| 5 | Transcriptome analysis of near-isogenic lines provides molecular insights into starch biosynthesis in maize kernel显示文摘Starch is the major component in maize kernels,providing a stable carbohydrate source for humans and livestock as well as raw material for the biofuel industry.Increasing maize kernel starch content will help meet industry demands and has the potential to increase overall yields.We developed a pair of maize near-isogenic lines(NILs) with different alleles for a starch quantitative trait locus on chromosome 3(q HS3), resulting in different kernel starch content. To investigate the candidate genes for q HS3 and elucidate their effects on starch metabolism, RNA-Seq was performed for the developing kernels of the NILs at 14 and 21 d after pollination(DAP). Analysis of genomic and transcriptomic data identified 76 genes with nonsynonymous single nucleotide polymorphisms and 384 differentially expressed genes(DEGs) in the in trogressed fragment, including a hexokinase gene, Zm HXK3 a, which catalyzes the conversion of glucose to glucose-6-phosphate and may play a key role instarch metabolism. The expression pattern of all DEGs in starch metabolism shows that altered expression of the candidate genes for q HS3 promoted starch synthesis,with positive consequences for kernel starch content. These results expand the current understanding of starch biosynthesis and accumulation in maize kernels and provide potential candidate genes to increase starch content. | Yingni Xiao Shawn Thatcher Min Wang Tingting Wang Mary Beatty Gina Zastrow-Hayes Lin Li Jiansheng Li Bailin Li Xiaohong Yang | 2016 | Journal of Integrative Plant Biology2016，58，8： | 2 |
| 6 | Evaluation of menopausal status among breast cancer patients with chemotherapy-induced amenorrhea显示文摘Objective: In patients with chemotherapy-induced amenorrhea(CIA), the menopausal status is ambiguous and difficult to evaluate. This study aimed to establish a discriminative model to predict and classify the menopausal status of breast cancer patients with CIA.Methods: This is a single center hospital-based study from 2013 to 2016. The menopausal age distribution and accumulated incidence rate of CIA are described. Multivariate models were adjusted for established and potential confounding factors including age, serum concentration of estradiol(E2) and follicle-stimulating hormone(FSH),feeding, pregnancy, parity, abortions, and body mass index(BMI). The odds ratio(OR) and 95% confidence interval(95% CI) of different risk factors were estimated.Results: A total of 1,796 breast cancer patients were included in this study, among whom, 1,175(65.42%) were premenopausal patients and 621(34.58%) were post-menopause patients. Five hundred and fifty patients were included in CIA analysis, and a cumulative CIA rate of 81.64% was found in them. Age(OR: 1.856, 95% CI:1.732-1.990), serum concentration of E2(OR: 0.976, 95% CI: 0.972-0.980) and FSH(OR: 1.060, 95% CI:1.053-1.066), and menarche age(OR: 1.074, 95% CI: 1.009-1.144) were found to be associated with the patients' menopausal status. According to multivariate analysis, the discriminative model to predict the menopausal status is Logit(P)=-28.396+0.536 Age-0.014 E2+0.031 FSH. The sensitivities for this model were higher than 85%, and its specificities were higher than 89%.Conclusions: The discriminative model obtained from this study for predicting menstrual state is important for premenopausal patients with CIA. This model has high specificity and sensitivity and should be prudently used. | Bailin Zhang Jinqi Wu Rongshou Zheng Qian Zhang Margaret Zhuoer Wang Jun Qi Haijing Liu Yipeng Wang Yang Guo Feng Chen Jing Wang Wenyue Lyu Jidong Gao Yi Fang Wanqing Chen Xiang Wang | 2018 | Chinese Journal of Cancer Research2018，30，4： | 2 |
| 7 | No-reference synthetic image quality assessment with convolutional neural network and local image saliency显示文摘Depth-image-based rendering(DIBR) is widely used in 3 DTV, free-viewpoint video, and interactive 3 D graphics applications. Typically, synthetic images generated by DIBR-based systems incorporate various distortions, particularly geometric distortions induced by object dis-occlusion. Ensuring the quality of synthetic images is critical to maintaining adequate system service. However, traditional 2 D image quality metrics are ineffective for evaluating synthetic images as they are not sensitive to geometric distortion. In this paper, we propose a novel no-reference image quality assessment method for synthetic images based on convolutional neural networks, introducing local image saliency as prediction weights. Due to the lack of existing training data, we construct a new DIBR synthetic image dataset as part of our contribution. Experiments were conducted on both the public benchmark IRCCyN/IVC DIBR image dataset and our own dataset. Results demonstrate that our proposed metric outperforms traditional 2 D image quality metrics and state-of-the-art DIBR-related metrics. | Xiaochuan Wang Xiaohui Liang Bailin Yang Frederick W.B.Li | 2019 | Computational Visual Media2019，5，2： | 1 |
| 8 | Carbon monoxide augments electrical signaling in cultured neural networks of hippocampal neurons partly through activation of BKCa channels显示文摘 | Hucheng Zhao Bailin Liu Quanyou Zhang Xiao'an WU Yang Yu Forrest Fabian Jesse Luming Li | 2015 | Acta Biochimica et Biophysica Sinica2015，47，5： | 1 |
| 9 | Analytical solution of a bilayer functionally graded cantilever beam with concentrated loads 显示文摘 | YANG Qing ZHENG Bailin | 2013 | Arch Appl Mech2013，83，3： | 1 |
| 10 | An optimized soft 3D mobile graphics library based on JIT backend compiler显示文摘 | Yang Bailin Ye Lu Pan Zhigen | 2005 | Lect Notes Comput Sci2005，，： | 1 |
| 11 | IAACS: Image aesthetic assessment through color composition and space formation显示文摘Background Determining how an image is visually appealing is a complicated and subjective task. This motivates the use of a machine-learning model to evaluate image aesthetics automatically by matching the aesthetics of the general public. Although deep learning methods have successfully learned good visual features from images,correctly assessing the aesthetic quality of an image remains a challenge for deep learning. Methods To address this, we propose a novel multiview convolutional neural network to assess image aesthetics assessment through color composition and space formation(IAACS). Specifically, from different views of an image––including its key color components and their contributions, the image space formation, and the image itself––our network extracts the corresponding features through our proposed feature extraction module(FET) and the Image Net weight-based classification model. Result By fusing the extracted features, our network produces an accurate prediction score distribution for image aesthetics. The experimental results show that we have achieved superior performance. | Bailin YANG Changrui ZHU Frederick WBLI Tianxiang WEI Xiaohui LIANG Qingxu WANG | 2023 | Virtual Reality & Intelligent Hardware2023，5，1： | 0 |
| 12 | Dependence of Estimating Whitecap Coverage on Currents and Swells显示文摘The shipboard measurements of whitecap coverage(W)and the meteorological and oceanographic information from two cruises in the South China Sea and Western Pacific are explored for estimating W.This study aims at evaluating how to im-prove the parameterizations of W while considering the effects of currents and swells on wave breaking.Currents indeed affect W in a way that winds with following currents can decrease W,whereas winds with opposing currents can increase W.Then,10-m wind speed over sea surface(U_(10))is calibrated by subtracting the current velocity from U_(10) when the propagating directions of winds and currents are aligned.By contrast,when the direction is opposite,U_(10) is calibrated by adding the parallel velocity com-ponent of the opposing current to U_(10).The power fits of W dependence on the U_(10)-related parameters of U_(10),friction velocity,wind sea Reynolds number in terms of this calibrated-U_(10) obtain better results than those directly fitted to U_(10).Different from the effect of currents on W,wind blowing along the crest line of swells may contribute to the increase in W.The conclusions suggest that U_(10) should be calibrated first before parameterizing W in areas with a strong current or some swell-dominant areas. | LIU Min YANG Bailin JIA Nan ZOU Zhongshui | 2021 | Journal of Ocean University of China2021，20，3： | 0 |
| 13 | Superlattice Structure from Re-stacked NiFe Layer Double Hydroxides for Oxygen Evolution Reaction显示文摘Layer double hydroxides(LDHs)have drawn significant amount of rescarch attentions as a typical category of inorganic 2D materials,with facile synthetic methodologies and a wide range of applications in catalysis and energy storage[1,2].LDHs consist of positively charged brucite-like host layers containing M(OH),octahedra,while anions and solvation molecules filled the interlayer for charge compensation.Generally. | LIU Shcngtang YANG Miao LIU Cheng TIAN Bailin DFNG Mengning | 2020 | Chemical Research in Chinese Universities2020，36，4： | 0 |
| 14 | Design of Landslide Warning System显示文摘Aiming at geological disaster monitoring and prevention work, a real-time monitoring and early warning system is proposed for low-power consumption of landslides to meet the needs of landslide monitoring in remote mountainous areas. The inclination angle of the mountain body was detected by a mechanical inclination sensor, and a plurality of inclination sensors were placed on each landslide body to form an array distribution. The landslide body was stereoscopically monitored. Each mesh node had a different node address, and different inclination thresholds were set in advance. When the sensor detection value reached the threshold, an alarm message was sent to the system main control end, and the main control end generated an audible and visual alarm, and an alarm message was sent at the same time. Compared with the current landslide warning system on the market, the system achieves expected results and its power consumption is extremely low. The sensor terminal of the mountain monitoring is powered by dry battery and can work for 6 years in the field without external power supply. It avoids the damages made by weather, livestock and human, and has broad application prospects. | Xiaoping Yang Jixuan Du Zhaoyu Su Pubin Nong Zhirong Qin Bailin Chen | 2019 | 国际计算机前沿大会会议论文集2019，，2： | 0 |
| 15 | 3D geometry-dependent texture map compression with a hybrid ROI coding显示文摘Difering from common 2D images,a texture map,since it is used to project onto a 3D model in 3D space,not only contains 2D texture information,but also implicitly associates certain 3D geometric information.Related to this,an efective 3D geometry-dependent texture map compression method with hybrid region of interest(ROI)coding is proposed in this paper.We regard the visually important area of the texture map as the ROI.To acquire the visually important areas of the texture map,we take into account information from both the 3D geometry and 2D texture maps,depicting the saliency of the textured model,distortion of the texture mapping,and boundary of the texture atlas.These visually important areas are expressed as a visual importance map.According to the particularity of the texture map,a hybrid ROI coding method that utilizes Max-Shift and an improved post compression rate distortion(PCRD)technique is presented,guided by this visual importance map.To find the exact wavelet coefcients pertaining to these ROIs before carrying out the hybrid ROI coding,this paper proposes a stochastic coefcient priority mask map computational method.Experimental results show that the visually important areas of the texture image have a better visual efect and that a good rendering result can be obtained from the texture mapping. | YANG BaiLin JING JianQiu WANG Xun HAN JianWei | 2014 | Science China(Information Sciences)2014，57，2： | 0 |
| 16 | THE EIGENVALUE PROBLEM AND SAINT-VENANT DECAY RATE FOR A NONHOMOGENEOUS SEMI-INFINITE STRIP显示文摘The eigenvalue problem about a nonhomogeneous semi-infinite strip is investigated using the methodology proposed by Papkovich and Fadle for homogeneous plane problems. Two types of nonhomogeneity are considered:(i) the elastic modulus varying with the thickness coordinate x exponentially,(ii) it varying with the length coordinate y exponentially. The eigenvalues for the two cases are obtained numerically in plane strain and plane stress states, respectively. By considering the smallest positive eigenvalue, the Saint-Venant Decay rates are estimated, which indicates material nonhomogeneity has a significant influence on the Saint-Venant end effect. | Qing Yang Bailin Zheng Kai Zhang Jianxin Zhu | 2014 | Acta Mechanica Solida Sinica2014，27，6： | 0 |
| 17 | Non-Contact Blood Pressure Measurement Based on IPPG显示文摘Blood pressure is an important physiological parameter to reflect human vital signs.In order to achieve the non-contact dynamic blood pressure acquisition based on ordinary optical camera,a theoretical understanding of the functional relationship between blood pressure and pulse wave signal conduction time.And through imaging photoelectric plethysmography(IPPG),pulse wave signal conduction time of forehead and hand was obtained with ordinary optical camera.First,the pulse wave conduction time was obtained by recording the video with an ordinary optical camera.Second,real-time blood pressure values were collected.Finally,based on the relationship between blood pressure and pulse wave conduction time,a non-contact blood pressure measurement prediction model was obtained through neural network fitting.So that non-contact blood pressure measurement with optical camera could be completed.The method in this paper has several advantages,such as low requirements on measuring equipment,low cost,and simple operation.It can let people get rid of the discomfort caused by measuring equipment such as cuff and can measure blood pressure at any time.The predicted blood pressure results were compared with an Omron wrist electronic sphygmomanometer.The calculated error of systolic blood pressure is-9.28%~3.16%,and the error of diastolic blood pressure is-9.84~4.35%. | Jiancheng Zou Shouyu Zhou Bailin Ge Xin Yang | 2021 | Journal of New Media2021，3，2： | 0 |
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