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| 1 | GSA:Genome Sequence Archive显示文摘With the rapid development of sequencing technologies towards higher throughput and lower cost, sequence data are generated at an unprecedentedly explosive rate. To provide an efficient and easy-to-use platform for managing huge sequence data, here we present Genome Sequence Archive(GSA; http://bigd.big.ac.cn/gsa or http://gsa.big.ac.cn), a data repository for archiving raw sequence data. In compliance with data standards and structures of the International Nucleotide Sequence Database Collaboration(INSDC), GSA adopts four data objects(Bio Project, Bio Sample,Experiment, and Run) for data organization, accepts raw sequence reads produced by a variety of sequencing platforms, stores both sequence reads and metadata submitted from all over the world,and makes all these data publicly available to worldwide scientific communities. In the era of big data, GSA is not only an important complement to existing INSDC members by alleviating the increasing burdens of handling sequence data deluge, but also takes the significant responsibility for global big data archive and provides free unrestricted access to all publicly available data in support of research activities throughout the world. | Yanqing Wang Fuhai Song Junwei Zhu Sisi Zhang Yadong Yang Tingting Chen Bixia Tang Lili Dong Nan Ding Qian Zhang Zhouxian Bai Xunong Dong Huanxin Chen Mingyuan Sun Shuang Zhai Yubin Sun Lei Yu Li Lan Jingfa Xiao Xiangdong Fang Hongxing Lei Zhang Zhang Wenming Zhao | 2017 | Genomics, Proteomics & Bioinformatics2017，15，1： | 13 |
| 2 | Whole Genome Analyses of Chinese Population and De Novo Assembly of A Northern Han Genome显示文摘To unravel the genetic mechanisms of disease and physiological traits,it requires comprehensive sequencing analysis of large sample size in Chinese populations.Here,we report the primary results of the Chinese Academy of Sciences Precision Medicine Initiative(CASPMI)project launched by the Chinese Academy of Sciences,including the de novo assembly of a northern Han reference genome(NH1.0)and whole genome analyses of 597 healthy people coming from most areas in China.Given the two existing reference genomes for Han Chinese(YH and HX1)were both from the south,we constructed NH1.0,a new reference genome from a northern individual,by combining the sequencing strategies of PacBio,10×Genomics,and Bionano mapping.Using this integrated approach,we obtained an N50 scaffold size of 46.63 Mb for the NH1.0 genome and performed a comparative genome analysis of NH1.0 with YH and HX1.In order to generate a genomic variation map of Chinese populations,we performed the whole-genome sequencing of 597 participants and identified 24.85 million(M)single nucleotide variants(SNVs),3.85 M small indels,and 106,382 structural variations.In the association analysis with collected phenotypes,we found that the T allele of rs1549293 in KAT8 significantly correlated with the waist circumference in northern Han males.Moreover,significant genetic diversity in MTHFR,TCN2,FADS1,and FADS2,which associate with circulating folate,vitamin B12,or lipid metabolism,was observed between northerners and southerners.Especially,for the homocysteine-increasing allele of rs1801133(MTHFR 677T),we hypothesize that there exists a “comfort”zone for a high frequency of 677T between latitudes of 35–45 degree North.Taken together,our results provide a high-quality northern Han reference genome and novel population-specific data sets of genetic variants for use in the personalized and precision medicine. | Zhenglin Du Liang Ma Hongzhu Qu Wei Chen Bing Zhang Xi Lu Weibo Zhai Xin Sheng Yongqiao Sun Wenjie Li Meng Lei Qiuhui Qi Na Yuan Shuo Shi Jingyao Zeng Jinyue Wang Yadong Yang Qi Liu Yaqiang Hong Lili Dong Zhewen Zhang Dong Zou Yanqing Wang Shuhui Song Fan Liu Xiangdong Fang Hua Chen Xin Liu Jingfa Xiao Changqing Zeng | 2019 | Genomics, Proteomics & Bioinformatics2019，17，3： | 4 |
| 3 | Coevolution study of mitochondria respiratory chain proteins:Toward the understanding of protein-protein interaction显示文摘Coevolution can be seen as the interdependency between evolutionary histories.In the context of protein evolution,functional correlation proteins are ever-present coordinated evolutionary characters without disruption of organismal integrity.As to complex system,there are two forms of protein—protein interactions in vivo,which refer to inter-complex interaction and intra-complex interaction.In this paper,we studied the difference of coevolution characters between inter-complex interaction and intra-complex interaction using 'Mirror tree' method on the respiratory chain(RC) proteins.We divided the correlation coefficients of every pairwise RC proteins into two groups corresponding to the binary protein—protein interaction in intra-complex and the binary protein—protein interaction in inter-complex,respectively.A dramatical discrepancy is detected between the coevolution characters of the two sets of protein interactions(Wilcoxon test,p-value = 4.4×10^(-6)).Our finding reveals some critical information on coevolutionary study and assists the mechanical investigation of protein—protein interaction. Furthermore,the results also provide some unique clue for supramolecular organization of protein complexes in the mitochondrial inner membrane.More detailed binding sites map and genome information of nuclear encoded RC proteins will be extraordinary valuable for the further mitochondria dynamics study. | Ming Yang Yan Ge Jiayan Wu Jingfa Xiao Jun Yu | 2011 | Journal of Genetics and Genomics2011，38，5： | 3 |
| 4 | Precision Medicine:What Challenges Are We Facing?显示文摘Following the publication of the US National Research Council(NRC)report‘‘Toward Precision Medicine:Building a Knowledge Network for Biomedical Research and a New Taxonomy of Diseases'in 2011[1],several nations have announced that their national research programs would definitely head toward this direction.Now,precision medicine(PM)became a banner for many large-scale | Yu Xue Eric-Wubbo Lameijer Kai Ye Kunlin Zhang Suhua Chang Xiaoyue Wang Jianmin Wu Ge Gao Fangqing Zhao Jian Li Chunsheng Han Shuhua Xu Jingfa Xiao Xuerui Yang Xiaomin Ying Xuegong Zhang Wei-Hua Chen Yun Liu Zhang Zhang Kun Huang Jun Yu | 2016 | Genomics, Proteomics & Bioinformatics2016，14，5： | 1 |
| 5 | 显示文摘 | Zhang Shi Yang Jun | 1992 | J Catal1992，138，2： | 1 |
| 6 | Promoting effects of Re and Cs on silver catalyst in ethylene epoxidation显示文摘 | Deng Jingfa Yang Jun Zhang Shi | 1992 | Journal of Catalysis1992，138，1： | 1 |
| 7 | Co-seismic deformation of the 2010 Mw6. 9 Yushu earthquake from InSAR images显示文摘Co-seismic ground-surface deformation of the Yushu earthquake on April 14,2010 is studied on the basis of interferometry principle by using InSAR images from ALOS PALSAR and ENVISAT ASAR pairs. The observed maximum line-of-sight displacement is 54 cm,which is equivalent to a sinistral strike slip of 180 cm on the surface. The location of macro-epicenter is very close to the epicenter determined by in situ investigation,suggesting that InSAR is an ideal tool for quick identification of the macro-epicenter,and thus for timely disaster assessment after a destructive earthquake. | Shen Qiang Qiao Xuejun Wang Qi Zhang Jingfa Tan Kai Yang Shaomin | 2011 | Geodesy and Geodynamics2011，2，4： | 1 |
| 8 | Enhancing the ionic conductivity in a composite polymer electrolyte with ceramic nanoparticles anchored to charged polymer brushes显示文摘Polymer electrolytes a re essential for next-gene ration lithium batteries because of their excellent safety record.However,low ionic conductivity is the main obstacle restricting their commercial application.Composites with nanoparticles are a promising route to overcome this obstacle.In this work,lithium polystyrene sulfonate brushes(LiPSS)is anchored to silicon dioxide nanoparticles with chemical bonding using atom transfer radial polymerization(SI-ATRP).The composite polymer electrolytes are made by mixing vinylene carbonate and nanoparticles via a facile in situ polymerization process.The ionic conductivity of composite polymer electrolytes is improved to 7.2×10^-4 S/cm at room temperature,which is attributed to the low degree of crystallinity of polymer electrolyte and the fast ion transport on the surfaces of polymer brush layers that act as a conductive network.The composite polymer electrolytes show a wide electrochemical window of approximately 4.5 V vs.Li^+/Li and excellent cycling performance retention of approximately 95%after 100 cycles at ambient temperature.The results also prove that surface groups of ceramic na noparticles are an important way to increase the electrochemical properties of composite polymer electrolytes. | Bintao Zhao Xi Lu Qian Wang Jingfa Yang Jiang Zhao Henghui Zhou | 2020 | Chinese Chemical Letters2020，31，3： | 1 |
| 9 | A new focused crawler using an improved tabu search algorithm incorporating ontology and host information显示文摘To solve the problems of incomplete topic description and repetitive crawling of visited hyperlinks in traditional focused crawling methods,in this paper,we propose a novel focused crawler using an improved tabu search algorithm with domain ontology and host information(FCITS_OH),where a domain ontology is constructed by formal concept analysis to describe topics at the semantic and knowledge levels.To avoid crawling visited hyperlinks and expand the search range,we present an improved tabu search(ITS)algorithm and the strategy of host information memory.In addition,a comprehensive priority evaluation method based on Web text and link structure is designed to improve the assessment of topic relevance for unvisited hyperlinks.Experimental results on both tourism and rainstorm disaster domains show that the proposed focused crawlers overmatch the traditional focused crawlers for different performance metrics. | Jingfa LIU Zhen WANG Guo ZHONG Zhihe YANG | 2023 | Frontiers of Information Technology & Electronic Engineering2023，24，6： | 0 |
| 10 | A tunable genome editing system of the prime editor mediated by dihydrofolate reductase显示文摘The clustered regularly interspaced short palindromic repeats(CRISPR)/CRISPR-associated protein(CRISPR/Cas)system was discovered in bacteria and archaea as an adaptive immunity system to protect against exogenous DNA(Barrangou et al.,2007).This system has been developed into a powerful gene editing tool for eukaryotic genome manipulation that has therapeutic opportunities against hereditary diseases(Cong et al.,2013),especially monogenic diseases. | Shu Liu Xiaoyue Duan Feng Peng Yafang Wang Yang Liu Xiaoling Wan Jingfa Zhang Xiaosa Li Xiaodong Sun | 2023 | Journal of Genetics and Genomics2023，50，3： | 0 |
| 11 | Probing the interplay between chain diffusion and polymer crystal growth under nanoscale confinement: a study by single molecule fluorescence microscopy显示文摘Motions of single poly(ε-caprolactone)(PCL) molecules during the formation of the dendrite crystals in ultrathin films are captured by single molecule fluorescence microscopy. The relationship of single molecule diffusion coefficient with the crystal growth rate, together with radius curvature, side-branch spacing of dendrite crystal and morphology are examined. The results support Mullins-Sekerka(MS) instability as the origin of lamellar branching induced by a diffusion field generated by a gradient of polymer segment density ahead of the crystal. Further analysis of the molecular trajectories has recognized different types of motions, depending on the distance to the crystal front: Fickian diffusion in regions far away from the crystal, sub-diffusion in regions adjacent to the crystal, and directed motion between these two regions. Anti-correlation of successive steps is discovered accompanying the sub-diffusion, providing a clear signature of macromolecule crowding at the crystal growth front. This anomalous diffusion process in polymer ultrathin films presents a new insight into the understanding of the retarded dynamics of interfacial mass transport towards the crystal front. It is considered to play a decisive role in controlling the crystal growth and evolution of crystal morphology. | Xi Lu Kaikai Zheng Jingfa Yang Jiang Zhao | 2018 | Science China Chemistry2018，61，11： | 0 |
| 12 | When does a diblock copolymer probe the interfacial rheological effect?显示文摘Lateral diffusion of diblock copolymer residing on the interfaces between two immiscible liquids is investigated at single molecular level. Fluorescence correlation spectroscopy was used to study the diffusion of fluorescence-labeled diblock copolymer,polystyrene-b-polyisoprene, at the interface formed between two immiscible liquids. The interfaces are formed between N,N-dimethylformamide(DMF) and a few immiscible liquids, n-alkane and polyisoprene. Interfacial diffusion coefficient of the diblock copolymer probe is found to decrease monotonously with the increase of the molecular length of the interface constituting liquids. The decrease of diffusion coefficient follows the prediction by Einstein relation using the viscosity of the constituting liquids as the variables only for interfaces between DMF and very small n-alkanes. For interfaces formed between DMF and bigger alkanes and especially between DMF and polyisoprene, the diffusion coefficient is much higher than the calculated value,indicating that the probe molecule starts to probe the much less viscous interfacial region because the interfacial width gets larger,whose thickness is comparable to the molecule size of the liquids. | Jingfa Yang Jiang Zhao | 2016 | Science China Chemistry2016，59，10： | 0 |
| 13 | Positioning a fluorescent probe at the core of a glassy star polymer for detection of local dynamics显示文摘Accessing local dynamics within a single macromolecule is the key to understand the physical origin of the viscoelasticity and especially the glass transition. In order to extract specific information on the dynamics of the branch point of a star polymer around its glass transition temperature, four-arm star poly(n-butyl methacrylate) with a fluorescent core was synthesized using perylene diimide as initiator and polymerization conducted via atom transfer radical polymerization. The process is found to be effective in positioning the fluorophore at the branch point with the fluorophore intact, which allows the successful application of single molecule fluorescence defocus imaging in examining the local sitesensitive dynamics. The power spectra of rotation trajectories, the population of rotating fluorophores as well as the distribution of angular displacement were used to revel the difference in local dynamics between branch point and the arm's end. It is discovered that the local dynamics at the core of the star polymer is much less activated than that at the arm's end. The results demonstrate the strong effect dues to the topological constrain at the branch point and the more free space at the arm's end. | Desheng Li Jingfa Yang Jiang Zhao | 2018 | Chinese Chemical Letters2018，29，3： | 0 |
| 14 | Segmental dynamics near the chain end of polystyrene in its ultrathin films:a study by single-molecule fluorescence de-focus microscopy显示文摘Rotational motion of fluorophores chemically attached to polystyrene chain-ends in ultra-thin films on solid substrates was studied by single-molecule fluorescence de-focus microscopy.The collective feature of the rotational motion was found and evidenced by the sharp change of the population of fluorophores undergoing rotational motion within a very narrow temperature range(named as the changing temperature,T c).The T c value was found to depend on film thickness and interfacial chemistry and the variation of the T c value is also dependent on the molecular weight of the polymer.The results demonstrate that the spatial confinement effect enhances the segmental mobility near the polymer chain-ends while the interfacial attraction restricts the segmental motion inside the thin film. | ZHENG ZhongLi LI DeSheng YANG JingFa ZHAO Jiang | 2014 | Science China Chemistry2014，57，3： | 0 |
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