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| 1 | H7N9 virulent mutants detected in chickens in China pose an increased threat to humans显示文摘 | Jianzhong Shi Guohua Deng Huihui Kong Chunyang Gu Shujie Ma Xin Yin Xianying Zeng Pengfei Cui Yan Chen Huanliang Yang Xiaopeng Wan Xiurong Wang Liling Liu Pucheng Chen Yongping Jiang Jinxiong Liu Yuntao Guan Yasuo Suzuki Mei Li Zhiyuan Qu Lizheng Guan Jinkai Zang Wenli Gu Shuyu Han Yangming Song Yuzhen Hu Zeng Wang Linlin Gu Wenyu Yang Libin Liang Hongmei Bao Guobin Tian Yanbing Li Chuanling Qiao Li Jiang Chengjun Li Zhigao Bu Hualan Chen | 2017 | Cell Research2017，27，12： | 70 |
| 2 | Scanning for signatures of geographically restricted selection based on population genomics analysis显示文摘Natural selection, as the driving force of human evolution, has direct impact on population differentiation. However, it is still unclear to what extent the genetic differentiation has been caused by natural selection. To explore this question, we performed a genome-wide scan with single nucleotide polymorphism (SNP) data from the International HapMap Project. Single locus FST analysis was applied to assess the frequency difference among populations in autosomes. Based on the empirical distribution of FST, we identified 12669 SNPs correlating to population differentiation and 1853 candidate genes subjected to geographic restricted natural selection. Further interpretation of gene ontogeny revealed 121 categories of biological process with the enrichments of candidate genes. Our results suggest that natural selection may play an important role in human population differentiation. In addition, our analysis provides new clues as well as research methods for our understanding of population differentiation and natural selection. | DENG LiBin TANG XiaoLi KANG Jian WANG QingYun ZENG ChangQing | 2007 | Chinese Science Bulletin2007，52，19： | 3 |
| 3 | H7N9 Influenza Viruses Are Transmissible in Ferrets by Respiratory Droplet显示文摘 | Qianyi Zhang Jianzhong Shi Guohua Deng Jing Guo Xianying Zeng Xijun He Huihui Kong Chunyang Gu Xuyong Li Jinxiong Liu Guojun Wang Yan Chen Liling Liu Libin Liang Yuanyuan Li Jun Fan Jinliang Wang Wenhui Li Lizheng Guan Qimeng Li Huanliang Yang Pucheng Che | 2013 | Science2013，，6144： | 1 |
| 4 | Identification of Global DNA Methylation Signatures in Glioblastoma-Derived Cancer Stem Cells显示文摘Glioblastoma(GBM)is the most common and most aggressive primary brain tumor in adults.The existence of a small population of stem-like tumor cells that efficiently propagate tumors and resist cytotoxic therapy is one proposed mechanism leading to the resilient behavior of tumor cells and poor prognosis.In this study,we performed an in-depth analysis of the DNA methylation landscape in GBMderived cancer stem cells(GSCs).Parallel comparisons of primary tumors and GSC lines derived from these tumors with normal controls(a neural stem cell(NSC)line and normal brain tissue)identified groups of hyper- and hypomethylated genes that display a trend of either increasing or decreasing methylation levels in the order of controls,primary GBMs,and their counterpart GSC lines,respectively.Interestingly,concurrent promoter hypermethylation and gene body hypomethylation were observed in a subset of genes including MGMT,AJAP1 and PTPRN2.These unique DNA methylation signatures were also found in primary GBM-derived xenograft tumors indicating that they are not tissue culture-related epigenetic changes.Integration of GSC-specific epigenetic signatures with gene expression analysis further identified candidate tumor suppressor genes that are frequently down-regulated in GBMs such as SPINT2,NEFM and PENK.Forced re-expression of SPINT2 reduced glioma cell proliferative capacity,anchorage independent growth,cell motility,and tumor sphere formation in vitro.The results from this study demonstrate that GSCs possess unique epigenetic signatures that may play important roles in the pathogenesis of GBM. | Eun-Joon Lee Prakash Rath Jimei Liu Dungsung Ryu Lirong Pei Satish K.Noonepalle Austin Y.Shull Qi Feng N.Scott Litofsky Douglas C.Miller Douglas C.Anthony Mark D.Kirk John Laterra Libin Deng Hong-Bo Xin Xinguo Wang Jeong-Hyeon Choi Huidong Shi | 2015 | Journal of Genetics and Genomics2015，42，7： | 1 |
| 5 | Block copolymerization of poly (diethylene glycol phthalic anhydride and methyl methacrylate initiated by potassium diperiodatonickelate (Ⅳ)显示文摘 | Liu Yinghai Bai Libin Zhou Weiqi Liu Yuanwei Li Yanxiang Deng Kuilin | | 0，，02： | 1 |
| 6 | H7N9 Influenza Viruses Are Transmissible in Ferrets by Respiratory Droplet显示文摘 | Qianyi Zhang Jianzhong Shi Guohua Deng Jing Guo Xianying Zeng Xijun He Huihui Kong Chunyang Gu Xuyong Li Jinxiong Liu Guojun Wang Yan Chen Liling Liu Libin Liang Yuanyuan Li Jun Fan Jinliang Wang Wenhui Li Lizheng Guan Qimeng Li Huanliang Yang Pucheng Che | 2013 | Science2013，，6144： | 1 |
| 7 | 2017年中国出现的H7N9高致病性病毒的快速进化显示文摘文章简介为了防控H7N9病毒,中国2017年9月开始对鸡进行了H5/H7二价禽流感灭活疫苗。为了解H7N9病毒在中国家禽中的分布情况,研究团队进行了系统的禽流感病毒监测。2017年2月至2017年5月之间在379个活禽市场和665个家禽养殖场共采集30201份样品(其中活禽市场采集12504份. | Jianzhong Shi Guohua Deng Shujie Ma Xianying Zeng Xin Yin Mei Li Bo Zhang Pengfei Cui Yan Chen Huanliang Yang Xiaopeng Wan Liling Liu Pucheng Chen Yongping Jiang Yuntao Guan Jinxiong Liu Wenli Gu Shuyu Han Yangming Song Libin Liang Zhiyuan Qu Yujie Hou Xiurong Wang Hongmei Bao Guobin Tian Yanbing Li Li Jiang Chengjun Li 陈化兰 | 2019 | 科学新闻2019，0，2： | 1 |
| 8 | Scanning for Genomic Regions Subject to Selective Sweeps Using SNP-MaP Strategy显示文摘Population genomic approaches, which take advantages of high-throughput genotyping, are powerful yet costly methods to scan for selective sweeps. DNA-pooling strategies have been widely used for association studies because it is a cost-effective alternative to large-scale individual genotyping. Here, we performed an SNP-MaP (single nucleotide polymorphism microarrays and pooling) analysis using samples from Eurasia to evaluate the efficiency of pooling strategy in genome-wide scans for selection. By conducting simulations of allelotype data, we first demonstrated that the boxplot with average heterozygosity (HET) is a promising method to detect strong selective sweeps with a moderate level of pooling error. Based on this, we used a sliding window analysis of HET to detect the large contiguous regions (LCRs) putatively under selective sweeps from Eurasia datasets. This survey identified 63 LCRs in a European population. These signals were further supported by the integrated haplotype score (iHS) test using HapMap II data. We also confirmed the European-specific signatures of positive selection from several previously identified genes (KEL, TRPV5, TRPV6, EPHB6). In summary, our results not only revealed the high credibility of SNP-MaP strategy in scanning for selective sweeps, but also provided an insight into the population differentiation. | Libin Deng Xiaoli Tang Wei Chen Jiari Lin Zhiqing Lai Zuoqi Liu Dake Zhang | 2010 | Genomics, Proteomics & Bioinformatics2010，8，4： | 0 |
| 9 | Gene2DGE: A Perl Package for Gene Model Renewal with Digital Gene Expression Data显示文摘For transcriptome analysis, it is critical to precisely define all the transcripts across the whole genome. More and more digital gene expression (DGE) scannings have indicated the presence of huge amount of novel transcripts in addition to the known gene models. However, almost all these studies still depend crucially on existing annotation. Here, we present Gene2DGE, a Perl software package for gene model renewal with DGE data. We applied Gene2DGE to the mouse blastomere transcriptome, and defined 98,532 read-enriched regions (RERs) by read clustering supported by more than four reads for each base pair. Taking advantage of this ab initio method, we refined 2,104 exonic regions (4% of a total of 48,501 annotated transcribed regions) with remarkable extension into un-annotated regions (>50 bp). For 5% of uniquely mapped reads falling within intron regions, we identified 13,291 additional possible exons. As a result, we renewed 4,788 gene models, which account for 39% of a total of 12,277 transcribed genes. Furthermore, we identified 12,613 intergenic RERs, suggesting the possible presence of novel genes outside the existing gene models. In this study, therefore, we have developed a suitable tool for re-newal of known gene models by ab initio prediction in transcriptome dissection. The Gene2DGE package is freely available at http://gffzz7910605137224006hb9pvu5n6x5b56bxk.ffgz.tsg.suse.edu.cn/. | Xiaoli Tang Libin Deng Dake Zhang Jiari Lin Yi Wei Qinqin Zhou Xiang Li Guilin Li Shangdong Liang | 2012 | Genomics, Proteomics & Bioinformatics2012，10，1： | 0 |
| 10 | Genetic Flux Between H1 and H2 Haplotypes of the 17q21.31 Inversion in European Population显示文摘The chromosome 17q21.31 inversion is a 900-kb common structural polymorphism found primarily in European population.Although the genetic flux within inversion region was assumed to be considerable suppressed, it is still unclear about the details of genetic exchange between the H1(non-inverted sequence)and H2(inverted sequence) haplotypes of this inversion.Here we describe a refined map of genetic exchanges between pairs of gene arrangements within the 17q21.31 region.Using HapMap phase II data of 1,546 single nucleotide polymorphisms, we successfully deduced 96 H1 and 24 H2 haplotypes in European samples by neighbor-joining tree reconstruction. Furthermore, we identified 15 and 26 candidate tracts with reciprocal and non-reciprocal genetic exchanges, respectively.In all 15 regions harboring reciprocal exchange, haplotypes reconstructed by clone sequencing did not support these exchange events, suggesting that such signals of exchange between two sister chromosomes in certain heterozygous individual were caused by phasing error regions.On the other hand, the finished clone sequencing across 4 of 26 tracts with non-reciprocal genetic flux confirmed that this kind of genetic exchange was caused by gene conversion.In summary, as crossover between pairs of gene arrangements had been considerably suppressed, gene conversion might be the most important mechanism for genetic exchange at 17q21.31. | Libin Deng Xiaoli Tang Xiangwen Hao Wei Chen Jiari Lin Yangyu Yu Dake Zhang Changqing Zeng | 2011 | Genomics, Proteomics & Bioinformatics2011，9，3： | 0 |
| 11 | NUIST ESM v3 Data Submission to CMIP6显示文摘This paper introduces the experimental designs and outputs of the Diagnostic,Evaluation and Characterization of Klima(DECK),historical,Scenario Model Intercomparison Project(MIP),and Paleoclimate MIP(PMIP)experiments from the Nanjing University of Information Science and Technology Earth System Model version 3(NESM3).Results show that NESM3 reasonably simulates the modern climate and the major internal modes of climate variability.In the Scenario MIP experiment,changes in the projected surface air temperature(SAT)show robust“Northern Hemisphere(NH)warmer than Southern Hemisphere(SH)”and“land warmer than ocean”patterns,as well as an El Niño-like warming over the tropical Pacific.Changes in the projected precipitation exhibit“NH wetter than SH”and“eastern hemisphere gets wetter and western hemisphere gets drier”patterns over the tropics.These precipitation patterns are driven by circulation changes owing to the inhomogeneous warming patterns.Two PMIP experiments show enlarged seasonal cycles of SAT and precipitation over the NH due to the seasonal redistribution of solar radiation.Changes in the climatological mean SAT,precipitation,and ENSO amplitudes are consistent with the results from PMIP4 models.The NESM3 outputs are available on the Earth System Grid Federation nodes for data users. | Jian CAO Libin MA Fei LIU Jing CHAI Haikun ZHAO Qiong HE Bo WANG Yan BAO Juan LI Young-min YANG Hua DENG Bin WANG | 2021 | Advances in Atmospheric Sciences2021，38，2： | 0 |
| 12 | An Analysis on the Economic Benefit of Simplified Cultivation Technology for Longan in Hills and Mountains of Maoming City显示文摘According to the characteristics of longan cultivated in the hill and mountain regions of Maoming City,this paper analyzed the economic benefit of the simplified cultivation techniques. With 15-year-old Chuliang longan trees as materials,the economic benefit of four kinds of simplified cultivation technologies was compared and analyzed. After nine years of continuous technological application,it was found that the input costs increased by 1. 62%,and the output profits increased by 56. 10%; in input costs,labor cost decreased by 41. 33%,pesticide cost decreased by 24. 19%,and fertilizer cost increased by 33. 57%. | Jianbin LUO Sheng ZHONG Jun CHEN Xiangyou ZENG Libin FU Yanzong ZHU Zhenquan DENG | 2016 | Asian Agricultural Research2016，8，11： | 0 |
| 13 | Constructing an initial map of transmission distortion based on high density HapMap SNPs across the human autosomes显示文摘Transmission distortion(TD) is a significant departure from Mendelian predictions of genes or chromosomes to offspring.While many biological processes have been implicated,there is still much to be understood about TD in humans.Here we present our findings from a genome-wide scan for evidence of TD using haplotype data of 60 trio families from the International HapMap Project.Fisher's exact test was applied to assess the extent of TD in 629,958 SNPs across the autosomes.Based on the empirical distribution of PFisher and further permutation tests,we identified 1,205 outlier loci and 224 candidate genes with TD.Using the PANTHER gene ontology database,we found 19 categories of biological processes with an enrichment of candidate genes.In particular,the 'protein phosphorylation' category contained the largest number of candidates in both HapMap samples.Further analysis uncovered an intriguing non-synonymous change in PPP1R12B,a gene related to protein phosphorylation,which appears to influence the allele transmission from male parents in the YRI(Yoruba from Ibadan,Nigeria) population.Our findings also indicate an ethnicity-related property of TD signatures in HapMap samples and provide new clues for our understanding of TD in humans. | Libin Deng Dake Zhang Elliott Richards Xiaoli Tang Jin Fang Fei Long Yan Wang | 2009 | Journal of Genetics and Genomics2009，36，12： | 0 |
| 14 | Mediator complex components are frequent targets for genetic alterations in various types of human cancer显示文摘The Mediator co-activator complex is a highly conserved,multisubunit protein complex required for gene transcription by RNA polymerase Ⅱ(RNAPⅡ)in all eukaryotes(Allen and Taatjes,2015).This complex,which consists of at least 30 polypeptides,can be divided into four structurally distinct sub-modules including the head,middle,tail,and cyclin-dependent kinase 8(CDK8) | Libin Deng Cheng Zhang Duling Miao Xiaoli Tang Shiwen Luo Hong-Bo Xin Huidong Shi | 2017 | Journal of Genetics and Genomics2017，44，12： | 0 |
| 15 | Osteopontin Promotes Macrophage M1 Polarization by Activation of the JAK1/STAT1/HMGB1 Signaling Pathway in Nonalcoholic Fatty Liver Disease显示文摘Background and Aims:Osteopontin(OPN)is reported to be associated with the pathogenesis of nonalcoholic fatty liver disease(NAFLD).However,the function of OPN in NAFLD is still inconclusive.Therefore,our aim in this study was to evaluate the role of OPN in NAFLD and clarify the involved mechanisms.Methods:We analyzed the expression change of OPN in NAFLD by bioinformatic analysis,qRT-PCR,western blotting and immunofluorescence staining.To clarify the role of OPN in NAFLD,the effect of OPN from HepG2 cells on macrophage polarization and the involved mechanisms were examined by FACS and western blotting.Results:OPN was significantly upregulated in NAFLD patients compared with normal volunteers by microarray data,and the high expression of OPN was related with disease stage and progression.OPN level was also significantly increased in liver tissue samples of NAFLD from human and mouse,and in HepG2 cells treated with oleic acid(OA).Furthermore,the supernatants of OPN-treated HepG2 cells promoted the macrophage M1 polarization.Mechanistically,OPN activated the janus kinase 1(JAK1)/signal transducers and activators of transcription 1(STAT1)signaling pathway in HepG2 cells,and consequently HepG2 cells secreted more high-mobility group box 1(HMGB1),thereby promoting macrophage M1 polarization.Conclusions:OPN promoted macrophage M1 polarization by increasing JAK1/STAT1-induced HMGB1 secretion in hepatocytes. | Zhihao Xu Feiyang Xi Xinxin Deng Yuqi Ni Changqin Pu Dan Wang Weiming Lou Xufang Zeng Ning Su Chen Chen Ziqiang Zeng Libin Deng Meixiu Jiang | 2023 | Journal of Clinical and Translational Hepatology2023，11，2： | 0 |
| 16 | Legionella pneumonia complicated with rhabdomyolysis and acute kidney injury diagnosed by metagenomic nextgeneration sequencing: a case report显示文摘The triad of Legionella pneumonia,rhabdomyolysis,and acute kidney injury(AKI)is uncommon but can be devastating.[1]It is vital to recognize Legionella species early as a potential cause of pneumonia.Legionella infection remains underdiagnosed because of the nonspecific nature of clinical features and the shortcomings of routinely available diagnostic tests.[2]Metagenomic next-generation sequencing(mNGS)is a culture-free and hypothesis-free diagnostic method that can rapidly identify almost all known pathogens in a sample.[3]Here,we present a successfully cured case of rhabdomyolysis and AKI caused by Legionella pneumophila with etiologic diagnosis aided by the use of mNGS. | Bin Deng Junjie Hua Yufei Zhou Duoxian Zhan Lijuan Zhu Yixing Zhan Yumin Fang Yun Ji Libin Li | 2023 | World Journal of Emergency Medicine2023，14，4： | 0 |
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