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| 1 | Conservation metagenomics: a new branch of conservation biology显示文摘Multifaceted approaches are required to monitor wildlife populations and improve conservation efforts. In the last decade,increasing evidence suggests that metagenomic analysis offers valuable perspectives and tools for identifying microbial communities and functions. It has become clear that gut microbiome plays a critical role in health, nutrition, and physiology of wildlife, including numerous endangered animals in the wild and in captivity. In this review, we first introduce the human microbiome and metagenomics, highlighting the importance of microbiome for host fitness. Then, for the first time, we propose the concept of conservation metagenomics, an emerging subdiscipline of conservation biology, which aims to understand the roles of the microbiota in evolution and conservation of endangered animals. We define what conservation metagenomics is along with current approaches, main scientific issues and significant implications in the study of host evolution, physiology,nutrition, ecology and conservation. We also discuss future research directions of conservation metagenomics. Although there is still a long way to go, conservation metagenomics has already shown a significant potential for improving the conservation and management of wildlife. | Fuwen Wei Qi Wu Yibo Hu Guangping Huang Yonggang Nie Li Yan | 2019 | Science China(Life Sciences)2019，62，2： | 10 |
| 2 | Diet drives convergent evolution of gut microbiomes in bamboo-eating species显示文摘Gut microbiota plays a critical role in host physiology and health.The coevolution between the host and its gut microbes facilitates animal adaptation to its specific ecological niche.Multiple factors such as host diet and phylogeny modulate the structure and function of gut microbiota.However,the relative contribution of each factor in shaping the structure of gut microbiota remains unclear.The giant(Ailuropoda melanoleuca)and red(Ailurus styani)pandas belong to different families of order Carnivora.They have evolved as obligate bamboo-feeders and can be used as a model system for studying the gut microbiome convergent evolution.Here,we compare the structure and function of gut microbiota of the two pandas with their carnivorous relatives using 16S rRNA and metagenome sequencing.We found that both panda species share more similarities in their gut microbiota structure with each other than each species shares with its carnivorous relatives.This indicates that the specialized herbivorous diet rather than host phylogeny is the dominant driver of gut microbiome convergence within Arctoidea.Metagenomic analysis revealed that the symbiotic gut microbiota of both pandas possesses a high level of starch and sucrose metabolism and vitamin B12 biosynthesis.These findings suggest a diet-driven convergence of gut microbiomes and provide new insight into host-microbiota coevolution of these endangered species. | Guangping Huang Xiao Wang Yibo Hu Qi Wu Yonggang Nie Jiuhong Dong Yun Ding Li Yan Fuwen Wei | 2021 | Science China(Life Sciences)2021，64，1： | 6 |
| 3 | 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 |
| 4 | In vitro testicular organogenesis from human fetal gonads produces fertilization-competent spermatids显示文摘Unlike most organs that mature during the fetal period,the male reproductive system reaches maturity only at puberty with the commencement of spermatogenesis.Robust modelling of human testicular organogenesis in vitro would facilitate research into mechanisms of and factors affecting human spermatogenic failure and male fertility preservation in prepubertal tumor patients.Here,we report successful recapitulation of human testicular organogenesis in vitro from fetal gonadal ridge.Our model displayed the formation of mature seminiferous epithelium and self-renewing spermatogonia.Remarkably,in vitro-derived haploid spermatids have undergone meiotic recombination,and showed increased genetic diversity as indicated by genetic analysis.Moreover,these spermatids were able to fertilize oocytes and support subsequent blastocyst formation.The in vitro testicular organogenesis system described here will play an important role in elucidating the regulation of human testis development and maintaining male fertility in prepubertal cancer patients. | Yan Yuan Laihua Li Qing Cheng Feiyang Diao Qiao Zeng Xiaoyu Yang Yibo Wu Hao Zhang Mingqian Huang Junqing Chen Quan Zhou Yunfei Zhu Rong Hua Jianyu Tian Xin Wang Zuomin Zhou Jie Hao Jinjin Yu Dong Hua Jiayin Liu Xuejiang Guo Qi Zhou Jiahao Sha | 2020 | Cell Research2020，30，3： | 6 |
| 5 | Follistatin-like protein 1 plays a tumor suppressor role in clear-cell renal cell carcinoma显示文摘Background:We previously showed that the expression of follistatin-like protein 1(FSTL1)was significantly down-regulated in metastatic clear-cell renal cell carcinoma(ccRCC).In this study,we aimed to characterize the role of FSTL1 in the development of ccRCC.Methods:The effects of FSTL1 on cell activity and cell cycle were investigated in ccRCC cell lines with altered FSTL1 expression.Gene expression microarray assays were performed to identify the major signaling pathways affected by FSTL1 knockdown.The expression of FSTL1 in ccRCC and its effect on postoperative prognosis were estimated in a cohort with 89 patients.Results:FSTL1 knockdown promoted anchorage-independent growth,migration,invasion,and cell cycle of ccRCC cell lines,whereas FSTL1 overexpression attenuated cell migration.FSTL1 knockdown up-regulated nuclear factor-κB(NF-κB)and hypoxia-inducible factor(HIF)signaling pathways,increased epithelial-to-mesenchymal transition,up-regulated interleukin-6 expression,and promoted tumor necrosis factor-α-induced degradation of NF-κB inhibitor(IκBα)in ccRCC cell lines.FSTL1 immunostaining was selectively positive in epithelial cytoplasm in the loop of Henle,and positive rate of FSTL1 was significantly lower in ccRCC tissues than in adjacent renal tissues(P<0.001).The mul-tivariate Cox regression analysis showed that the intratumoral FSTL1 expression conferred a favorable independent prognosis with a hazard ratio of 0.325(95%confidence interval 0.118-0.894).HIF-2αexpression was negatively cor-related with FSTL1 expression in ccRCC specimens(r=−0.229,P=0.044).Intratumoral expression of HIF-2α,rather than HIF-1α,significantly predicted an unfavorable prognosis in ccRCC(log-rank,P=0.038).Conclusions:FSTL1 plays a tumor suppression role possibly via repressing the NF-κB and HIF-2αsignaling pathways.To increase FSTL1 expression might be a candidate therapeutic strategy for metastatic ccRCC. | Yan Liu Xiaojie Tan Wenbin Liu Xi Chen Xiaomei Hou Dan Shen Yibo Ding Jianhua Yin Ling Wang Hongwei Zhang Yongwei Yu Jianguo Hou Timothy C.Thompson Guangwen Cao | 2018 | Cancer Communications2018，38，1： | 5 |
| 6 | Hierarchically structured semiconductor@noble-metal@MOF for high-performance selective photocatalytic CO_(2)reduction显示文摘Photocatalytic CO_(2)reduction to convert solar energy to clean energy remains a critical challenge in exploring efficient catalysts.Herein,a hierarchical structured BiVO4@Au@UiO-66-NH_(2)with high photocatalytic activity was fabricated.The theoretical calculations revealed that the metal–organic framework(MOF)with relative higher conduction band(CB)and UiO-66-NH_(2)with relative lower valence band(VB)could absorb full light spectrum,combining Au nanoparticle with suitable Fermi level into a particulate tandem heterojunction.This configuration can not only lower the activation barrier of CO_(2)reduction using the rich active site of MOF,but also improve the selectivity toward CO by optimizing the reaction pathway.Notably,the experimental evaluation proved that BiVO4@Au@UiO-66-NH2 displays a producing rate of 232.7μmol h^(-1)g^(-1)for CO and a selectivity of 97.2%.The investigation reveals that elaborately integrating multiple functional components into such a hier-archical structure enables optimizing crucial processes in photocatalytic CO_(2)conversion and enhancing selectivity via synergistic catalysis. | Yibo Dou Si-Min Xu Awu Zhou Haozheng Wang Jian Zhou Hong Yan Jian-Rong Li | 2020 | Green Chemical Engineering2020，1，1： | 3 |
| 7 | Spatially defined single-cell transcriptional profiling characterizes diverse chondrocyte subtypes and nucleus pulposus progenitors in human intervertebral discs显示文摘A comprehensive understanding of the cellular heterogeneity and molecular mechanisms underlying the development,homeostasis,and disease of human intervertebral disks(IVDs)remains challenging.Here,the transcriptomic landscape of 108108 IVD cells was mapped using single-cell RNA sequencing of three main compartments from young and adult healthy IVDs,including the nucleus pulposus(NP),annulus fibrosus,and cartilage endplate(CEP).The chondrocyte subclusters were classified based on their potential regulatory,homeostatic,and effector functions in extracellular matrix(ECM)homeostasis.Notably,in the NP,a PROCR+resident progenitor population showed enriched colony-forming unit-fibroblast(CFU-F)activity and trilineage differentiation capacity.Finally,intercellular crosstalk based on signaling network analysis uncovered that the PDGF and TGF-βcascades are important cues in the NP microenvironment.In conclusion,a single-cell transcriptomic atlas that resolves spatially regulated cellular heterogeneity together with the critical signaling that underlies homeostasis will help to establish new therapeutic strategies for IVD degeneration in the clinic. | Yibo Gan Jian He Jun Zhu Zhengyang Xu Zhong Wang Jing Yan Ou Hu Zhijie Bai Lin Chen Yangli Xie Min Jin Shuo Huang Bing Liu Peng Liu | 2021 | Bone Research2021，9，3： | 3 |
| 8 | Expression of orphan nuclear receptor NR4A2 in gastric cancer cells confers chemoresistance and predicts an unfavorable postoperative survival of gastric cancer patients with chemotherapy显示文摘 | Yifang Han Hui Cai Liye Ma Yibo Ding Xiaojie Tan Wenjun Chang Wei Guan Yan Liu Qiuxia Shen Yongwei Yu Hongwei Zhang Guangwen Cao | 2013 | Cancer2013，，19： | 2 |
| 9 | Hypoxia response element-directed expression of bFGF in dental pulp stem cells improve the hypoxic environment by targeting pericytes in SCI rats显示文摘Cell-based transplantation strategies possess great potential for spinal cord injury(SCI)repair.Basic fibroblast growth factor(bFGF)has been reported to have multiple neuro-promoting effects on developing and adult nervous system of mammals and considered a promising therapy for nerve injury following SCI.Human dental pulp stem cells(DPSCs)are abundant stem cells with low immune rejection,which can be considered for cell replacement therapy.The purpose of this study was to investigate the roles of DPSCs which express bFGF under the regulation of five hypoxia-responsive elements(5HRE)using an adeno-associated virus(AAV-5HRE-bFGF-DPSCs)in SCI repairing model.In this study,DPSCs were revealed to differentiate into CD13^(+)pericytes and up-regulate N-cadherin expression to promote the re-attachment of CD13^(+)pericytes to vascular endothelial cells.The re-attachment of CD13^(+)pericytes to vascular endothelial cells subsequently increased the flow rate of blood in microvessels via the contraction of protuberance.As a result,increased numbers of red blood cells carried more oxygen to the damaged area and the local hypoxia microenvironment in SCI was improved.Thus,this study represents a step forward towards the potential use of AAV-5HRE-bFGF-DPSCs in SCI treatment in clinic. | Sipin Zhu Yibo Ying Yan He Xingxing Zhong Jiahui Ye Zhiyang Huang Min Chen Qiuji Wu Yifan Zhang Ziyue Xiang Yurong Tu Weiyang Ying Jian Xiao Xiaokun Li Qingsong Ye Zhouguang Wang | 2021 | Bioactive Materials2021，6，8： | 2 |
| 10 | Cholesterol homeostasis regulated by ABCA1 is critical for retinal ganglion cell survival显示文摘Genome-wide association studies have suggested a link between primary open-angle glaucoma and the function of ABCA1.ABCA1 is a key regulator of cholesterol efflux and the biogenesis of high-density lipoprotein(HDL) particles. Here, we showed that the POAG risk allele near ABCA1 attenuated ABCA1 expression in cultured cells. Consistently, POAG patients exhibited lower ABCA1 expression, reduced HDL, and higher cholesterol in white blood cells. Ablation of Abca1 in mice failed to form HDL, leading to elevated cholesterol levels in the retina. Counting retinal ganglion cells(RGCs) by using an artificial intelligence(AI) program revealed that Abca1-deficient mice progressively lost RGCs with age. Single-cell RNA sequencing(scRNA-seq) revealed aberrant oxidative phosphorylation in the Abca1-/-retina, as well as activation of the mTORC1 signaling pathway and suppression of autophagy. Treatment of Abca1-/-mice using atorvastatin reduced the cholesterol level in the retina,thereby improving metabolism and protecting RGCs from death. Collectively, we show that lower ABCA1 expression and lower HDL are risk factors for POAG. Accumulated cholesterol in the Abca1-/-retina causes profound aberrant metabolism, leading to a POAG-like phenotype that can be prevented by atorvastatin. Our findings establish statin use as a preventive treatment for POAG associated with lower ABCA1 expression. | Jialiang Yang Yuhong Chen Tongdan Zou Bai Xue Fang Yang Xiangzhou Wang Yibo Huo Boyun Yan Yuxia Xu Shiyu He Yi Yin Jing Wang Xiong Zhu Lin Zhang Yu Zhou Zhengfu Tai Ping Shuai Man Yu Qian Luo Yilian Cheng Bo Gong Xianjun Zhu Jing Zhang Xinghuai Sun Ying Lin Houbin Zhang Zhenglin Yang | 2023 | Science China(Life Sciences)2023，66，2： | 2 |
| 11 | Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein显示文摘Background:The coronavirus disease 2019(COVID-19)caused by severe acute respiratory syndrome-related coronavirus-2(SARS-CoV-2)is pandemic.However,the origins and global transmission pattern of SARS-CoV-2 remain largely unknown.We aimed to characterize the origination and transmission of SARS-CoV-2 based on evolutionary dynamics.Methods:Using the full-length sequences of SARS-CoV-2 with intact geographic,demographic,and temporal information worldwide from the GISAID database during 26 December 2019 and 30 November 2020,we constructed the transmission tree to depict the evolutionary process by the R package'outbreaker'.The affinity of the mutated receptor-binding region of the spike protein to angiotensin-converting enzyme 2(ACE2)was predicted using mCSM-PPI2 software.Viral infectivity and antigenicity were tested in ACE2-transfected HEK293T cells by pseudovirus transfection and neutralizing antibody test.Results:From 26 December 2019 to 8 March 2020,early stage of the COVID-19 pandemic,SARS-CoV-2 strains identified worldwide were mainly composed of three clusters:the Europe-based cluster including two USA-based subclusters;the Asia-based cluster including isolates in China,Japan,the USA,Singapore,Australia,Malaysia,and Italy;and the USA-based cluster.The SARS-CoV-2 strains identified in the USA formed four independent clades while those identified in China formed one clade.After 8 March 2020,the clusters of SARS-CoV-2 strains tended to be independent and became'pure'in each of the major countries.Twenty-two of 60 mutations in the receptor-binding domain of the spike protein were predicted to increase the binding affinity of SARS-CoV-2 to ACE2.Of all predicted mutants,the number of E484K was the largest one with 86585 sequences,followed by S477N with 55442 sequences worldwide.In more than ten countries,the frequencies of the isolates with E484K and S477N increased significantly.V367F and N354D mutations increased the infectivity of SARS-CoV-2 pseudoviruses(P<0.001).SARS-CoV-2 with V367F was more sensitive to the S1-targeting neutralizing antibody than the wild-type counterpart(P<0.001).Conclusions:SARS-CoV-2 strains might have originated in several countries simultaneously under certain evolutionary pressure.Travel restrictions might cause location-specific SARS-CoV-2 clustering.The SARS-CoV-2 evolution appears to facilitate its transmission via altering the affinity to ACE2 or immune evasion. | Jiluo Liu Xi Chen Yan Liu Jiansheng Lin Jiaying Shen Hongwei Zhang Jianhua Yin Rui Pu Yibo Ding Guangwen Cao | 2021 | Infectious Diseases of Poverty2021，10，4： | 2 |
| 12 | Polymeric architectures of bismuth citrate based on dimeric building blocks显示文摘Four bismuth complexes, (H2En)[Bi2(cit)2(H2O)4/3]·(H2O)x (1), (H2En)3[Bi2(cit)2Cl4]·(H2O)x (2), (HPy)2[Bi2(cit)2(H2O)8/5]·(H2O)x (3) and (H2En)[Bi2(cit)2](H2O)x (4) [cit = citrate4-; En = ethylenediamine; Py = pyridine] have been synthesized and crystallized. The crystal structures reveal that the basic building blocks in all of these complexes are bismuth citrate dimeric units which combine to form polymeric architectures. The embedded protonated ethylenediamine and pyridine moieties in the polymeric frameworks have been identified by X-ray crystallography and solid-state cross polarization/magic angle spinning (CP/MAS) 13C NMR. Based on the framework of complex 1, a structural model of a clinically used antiulcer drug, ranitidine bismuth citrate (RBC) was generated. The behavior of the protonated amine-bismuth citrate complexes in acidic aqueous solution has been studied by electrospray ionization-mass spectrometry (ESI-MS). | YANG Nan AN Yan CAI JiWen HU LiHong ZENG YiBo MAO ZongWan CHEN GuanHua SUN HongZhe | 2010 | Science China Chemistry2010，53，10： | 1 |
| 13 | Hydrothermal synthesis and structure of new lanthanide coordination polymers with dicarboxylic acid and 1,10- phenanthroline 显示文摘 | Wang Yibo Wang Zheming Yan Chunhua | 2004 | Journal of Molecular Structure2004，692，2： | 1 |
| 14 | 大熊猫保护区的生态系统服务价值显示文摘文章简介全球生态系统服务价值估计每年为125万亿美元,相似的国家和区域层面的评估也显示生态系统服务价值足以支撑我们的生活。所有的生态系统服务价值评估都肯定了生物多样性的重要作用. | 魏辅文 Robert Costanza Qiang Dai Natalie Stoeckl Xiaodong Gu Stephen Farber Yonggang Nie Ida Kubiszewski Yibo Hu Ronald Swaisgood Xuyu Yang Michael Bruford Youping Chen Alexey Voinov Dunwu Qi Megan Owen Li Yan Daniel C.Kenny Zejun Zhang Rong Hou Shiwei Jiang Hongbo Liu Xiangjiang Zhan Li Zhang Biao Yang Lianjun Zhao Xiaoguang Zheng Wenliang Zhou Yali Wen Heran Gao Wen Zhang | 2019 | 科学新闻2019，0，2： | 1 |
| 15 | A 3D QSAR Study of Betulinic Acid Derivatives as Anti-Tumor Agents Using Topomer Co MFA:Model Building Studies and Experimental Verification显示文摘 | Ding Weimin Sun Miao Luo Shaman Xu Tao Cao Yibo Yan Xiufeng Wang Yang | 2013 | Molecules2013，18，10： | 1 |
| 16 | Octacyclic and decacyclic ent‑abietane dimers with cytotoxic activity from Euphorbia fischeriana steud.显示文摘A novel Diels-Alder adduct possesses a 6/6/6/5/6/6/6/6 octacyclic skeleton featured with bicyclo[2.2.2]octane moiety,biseupyiheoid A(1),along with another decacyclic 6/6/6/3/5/6/5/6/6/6 fused diterpenoid dimer,bisfischoid C(2),were isolated from Euphorbia fischeriana.Their structures were determined by spectroscopic,X-ray crystallographic approaches,and quantum mechanical calculations.The structural features of 1 and 2 were hypothesized to involve intramolecular Diels-Alder reactions with different coupling patterns.Dimer 1 showed antiproliferative activity through apoptosis activation in LoVo cells. | Yulin Peng Yibo Chang Chengpeng Sun Weiyi Wang Chao Wang Yan Tian Baojing Zhang Sa Deng Wenyu Zhao Xiaochi Ma | 2022 | Chinese Chemical Letters2022，33，9： | 1 |
| 17 | β-Ga2O3 MOSFETs on the Si substrate fabricated by the ion-cutting process显示文摘β-Ga2O3 MOSFETs are demonstrated on heterogeneous Ga2O3-Al2O3-Si(GaOISi)substrate fabricated by ion-cutting process.Enhancement(E)-and depletion(D)-modeβ-Ga2O3 transistors are realized on by varying the channel thickness(Tch).E-mode GaOISi transistor with a Tchof 15 nm achieves a high threshold voltage VTHof^8 V.With the same T increase,GaOISi transistors demonstrate more stable ON-current IONand OFF-current IOFFperformance compared to the reported devices on bulk Ga2O3 wafer.Transistors on GaOISi achieve the breakdown voltage of 522 and 391 V at 25°C and 200°C,respectively. | YiBo Wang WenHui Xu TianGui You FengWen Mu HaoDong Hu Yan Liu Hao Huang Tadatomo Suga GenQuan Han Xin Ou Yue Hao | 2020 | Science China(Physics,Mechanics & Astronomy)2020，63，7： | 1 |
| 18 | Ar- gon plasma reduced Pt nanocatalysts supported on carbon nanotube for aqueous phase benzyl alcohol oxidation 显示文摘 | ZHOU CHUNMEI CHEN HONG YAN YIBO | 2013 | Catalysis Today2013，211，1： | 1 |
| 19 | Remediation of Cu and As contaminated water and soil utilizing biochar supported layered double hydroxide:Mechanisms and soil environment altering显示文摘Preparing materials for simultaneous remediation of anionic and cationic heavy metals contamination has always been the focus of research. Herein a biochar supported FeMnMg layered double hydroxide(LDH) composites(LB) for simultaneous remediation of copper and arsenic contamination in water and soil has been assembled by a facile co-precipitation approach. Both adsorption isotherm and kinetics studies of heavy metals removal by LB were applied to look into the adsorption performance of adsorbents in water. Moreover, the adsorption mechanisms of Cu and As by LB were investigated, showing that Cu in aqueous solution was removed by the isomorphic substitution, precipitation and electrostatic adsorption while As was removed by complexation. In addition, the availability of Cu and As in the soil incubation experiments was reduced by 35.54%–63.00% and 8.39%–29.04%, respectively by using LB. Meanwhile, the addition of LB increased the activities of urease and sucrase by 93.78%–374.35% and 84.35%–520.04%, respectively, of which 1% of the dosage was the best. A phenomenon was found that the richness and structure of microbial community became vigorous within 1% dosage of LB, which indirectly enhanced the passivation and stabilization of heavy metals. These results indicated that the soil environment was significantly improved by LB. This research demonstrates that LB would be an imaginably forceful material for the remediation of anionic and cationic heavy metals in contaminated water and soil. | Pengling Shao Hua Yin Yingchao Li Yuhao Cai Caiya Yan Yibo Yuan Zhi Dang | 2023 | Journal of Environmental Sciences2023，，4： | 1 |
| 20 | Hepatitis B Virus Combo Mutations Improve the Prediction and Active Prophylaxis of Hepatocellular Carcinoma: A Clinic-Based Cohort Study显示文摘 | Jianhua Yin Junxue Wang Rui Pu Haiguang Xin Zixiong Li Xue Han Yibo Ding Yan Du Wenbin Liu Yang Deng Xiaowei Ji Ming Wu Min Yu Hongwei Zhang Hongyang Wang Timothy C. Thompson Wu Ni Guangwen Cao | 2015 | Cancer Prevention Research2015，，： | 1 |
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