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| 1 | Sequencing of Cultivated Peanut, Arachis hypogaea, Yields Insights into Genome Evolution and Oil Improvement显示文摘Cultivated peanut (Arachis hypogaea) is an allotetraploid crop planted in Asia, Africa, and America for edible oil and protein. To explore the origins and consequences of tetraploidy, we sequenced the allotetraploid A. hypogaea genome and compared it with the related diploid Arachis duranensis and Arachis ipaensis genomes. We annotated 39 888 A-subgenome genes and 41 526 B-subgenome genes in allotetraploid peanut. The A. hypogaea subgenomes have evolved asymmetrically, with the B subgenome resembling the ancestral state and the A subgenome undergoing more gene disruption, loss, conversion, and transposable element proliferation, and having reduced gene expression during seed development despite lacking genome-wide expression dominance. Genomic and transcriptomic analyses identified more than 2 500 oil metabolism-related genes and revealed that most of them show altered expression early in seed development while their expression ceases during desiccation, presenting a comprehensive map of peanut lipid biosynthesis. The availability of these genomic resources will facilitate a better understanding of the complex genome architecture, agronomically and economically important genes, and genetic improvement of peanut. | Xiaoping Chen Qing Lu Hao Liu Jianan Zhang Yanbin Hong Haofa Lan Haifen Li Jinpeng Wang Haiyan Liu Shaoxiong Li Manish K.Pandey Zhikang Zhang Guiyuan Zhou Jigao Yu Guoqiang Zhang Jiaqing Yuan Xingyu Li Shijie Wen Fanbo Meng Shanlin Yu Xiyin Wang Kadambot H.M.Siddique Zhong-Jian Liu Andrew H.Paterson Rajeev K.Varshney Xuanqiang Liang | 2019 | Molecular Plant2019，12，7： | 23 |
| 2 | The p53-induced lincRNA-p21 derails somatic cell reprogramming by sustaining H3K9me3 and CpG methylation at pluripotency gene promoters显示文摘最近的研究在众多的生物过程增加了我们长 noncoding RNA (lncRNAs ) 的理解,但是很少在体的房间 reprogramming 检验了他们的角色。通过表示介绍并且功能的屏蔽,我们鉴别了大 intergenic noncoding RNA p21 (lincRNA-p21 ) 损害 reprogramming。尤其是, lincRNA-p21 被 p53 导致,但是不在 reprogramming 支持 apoptosis 或房间老朽。相反, lincRNA-p21 与 H3K9 methyltransferase SETDB1 和维护 DNA methyltransferase DNMT1 联系,它被 RNA 有约束力的蛋白质 HNRNPK 便于。因而, lincRNA-p21 由在 pluripotency 基因倡导者支撑 H3K9me3 或 CpG methylation 阻止 reprogramming。我们的结果在 reprogramming 提供卓见进 lncRNAs 的角色并且建立在 p53 和 heterochromatin 规定之间的一个新奇连接。 | Xichen Bao Haitao Wu Xihua Zhu Xiangpeng Guo Andrew P Hutchins Zhiwei Luo Hong Song Yongqiang Chen Keyu Lai Menghui Yin Lingxiao Xu Liang Zhou Jiekai Chen Dongye Wang Baoming Qin Jon Frampton Hung-Fat Tse Duanqing Pei Huating Wang Biliang Zhang Miguel A Esteban | 2015 | Cell Research2015，25，1： | 21 |
| 3 | Complete Moment and Integral Convergence for Sums of Negatively Associated Random Variables显示文摘为相等分布式的否定地联系的随机的变量鈥淴 n 的一个序列;n 鈮 ? 与部分和 S n = 危 i=1 n X i,一起的 1 鈥 ? n 鈮 ? 1,精炼古典 Baum-Katz 和 Lai 完全的集中定理被介绍。更明确地,必要。 | Han Ying LIANG De Li LI Andrew ROSALSKY | 2010 | Acta Mathematica Sinica,English Series2010，26，3： | 20 |
| 4 | Tribological behaviour diagnostic and fault detection of mechanical seals based on acoustic emission measurements显示文摘Acoustic emission(AE) has been studied for monitoring the condition of mechanical seals by many researchers, however to the best knowledge of the authors, typical fault cases and their effects on tribological behaviour of mechanical seals have not yet been successfully investigated. In this paper, AE signatures from common faults of mechanical seals are studied in association with tribological behaviour of sealing gap to develop more reliable condition monitoring approaches. A purpose-built test rig was employed for recording AE signals from the mechanical seals under healthy and faulty conditions. The collected data was then processed using time domain and frequency domain analysis methods. The study has shown that AE signal parameters: root mean squared(RMS) along with AE spectrum, allows fault conditions including dry running, spring out and defective seal faces to be diagnosed under a wide range of operating conditions. However, when mechanical seals operate around their transition point, conventional signal processing methods may not allow a clear separation of the fault conditions from the healthy baseline. Therefore an auto-regressive(AR) model has been developed on recorded AE signals to classify different fault conditions of mechanical seals and satisfactory results have been perceived. | Hossein TOWSYFYAN Fengshou GU Andrew D BALL Bo LIANG | 2019 | Friction2019，7，6： | 10 |
| 5 | White Matter Abnormalities in Major Depression Biotypes Identified by Diffusion Tensor Imaging显示文摘Identifying data-driven biotypes of major depressive disorder(MDD) has promise for the clarification of diagnostic heterogeneity. However, few studies have focused on white-matter abnormalities for MDD subtyping. This study included 116 patients with MDD and118 demographically-matched healthy controls assessed by diffusion tensor imaging and neurocognitive evaluation.Hierarchical clustering was applied to the major fiber tracts, in conjunction with tract-based spatial statistics, to reveal white-matter alterations associated with MDD.Clinical and neurocognitive differences were compared between identified subgroups and healthy controls. With fractional anisotropy extracted from 20 fiber tracts, cluster analysis revealed 3 subgroups based on the patterns of abnormalities. Patients in each subgroup versus healthy controls showed a stepwise pattern of white-matter alterations as follows: subgroup 1(25.9% of patient sample),widespread white-matter disruption;subgroup 2(43.1% of patient sample), intermediate and more localized abnormalities in aspects of the corpus callosum and left cingulate;and subgroup 3(31.0% of patient sample),possible mild alterations, but no statistically significant tract disruption after controlling for family-wise error. The neurocognitive impairment in each subgroup accompanied the white-matter alterations: subgroup 1, deficits in sustained attention and delayed memory;subgroup 2, dysfunction in delayed memory;and subgroup 3, no significant deficits. Three subtypes of white-matter abnormality exist in individuals with major depression, those having widespread abnormalities suffering more neurocognitive impairments, which may provide evidence for parsing the heterogeneity of the disorder and help optimize typespecific treatment approaches. | Sugai Liang Qiang Wang Xiangzhen Kong Wei Deng Xiao Yang Xiaojing Li Zhong Zhang Jian Zhang Chengcheng Zhang Xin-min Li Xiaohong Ma Junming Shao Andrew J. Greenshaw Tao Li | 2019 | Neuroscience Bulletin2019，35，5： | 9 |
| 6 | Neurocognitive Graphs of First-Episode Schizophrenia and Major Depression Based on Cognitive Features显示文摘Neurocognitive deficits are frequently observed in patients with schizophrenia and major depressive disorder(MDD). The relations between cognitive features may be represented by neurocognitive graphs based on cognitive features, modeled as Gaussian Markov random fields. However, it is unclear whether it is possible to differentiate between phenotypic patterns associated with the differential diagnosis of schizophrenia and depression using this neurocognitive graph approach. In this study, we enrolled 215 first-episode patients with schizophrenia(FES), 125 with MDD, and 237 demographically-matched healthy controls(HCs). The cognitive performance of all participants was evaluated using a battery of neurocognitive tests. The graphical LASSO model was trained with aone-vs-one scenario to learn the conditional independent structure of neurocognitive features of each group. Participants in the holdout dataset were classified into different groups with the highest likelihood. A partial correlation matrix was transformed from the graphical model to further explore the neurocognitive graph for each group. The classification approach identified the diagnostic class for individuals with an average accuracy of 73.41% for FES vs HC, 67.07% for MDD vs HC, and 59.48% for FES vs MDD. Both of the neurocognitive graphs for FES and MDD had more connections and higher node centrality than those for HC. The neurocognitive graph for FES was less sparse and had more connections than that for MDD.Thus, neurocognitive graphs based on cognitive features are promising for describing endophenotypes that may discriminate schizophrenia from depression. | Sugai Liang Roberto Vega Xiangzhen Kong Wei Deng Qiang Wang Xiaohong Ma Mingli Li Xun Hu Andrew J.Greenshaw Russell Greiner Tao Li | 2018 | Neuroscience Bulletin2018，34，2： | 6 |
| 7 | Oxygen-induced controllable p-type doping in 2D semiconductor transition metal dichalcogenides显示文摘Exposure to oxygen alters the physical and chemical properties of two-dimensional(2D)transition metal dichalcogenides(TMDs).In particular,oxygen in the ambient may influence the device stability of 2D TMDs over time.Engineering the doping of 2D TMDs,especially hole doping is highly desirable towards their device function.Herein,controllable oxygen-induced p-type doping in a range of hexagonal(MoTe2,WSe2,MoSe2 and PtSe2)and pentagonal(PdSe2)2D TMDs are demonstrated.Scanning tunneling microscopy,electrical transport and X-ray photoelectron spectroscopy are used to probe the origin of oxygen-derived hole doping.Three mechanisms are postulated that contribute to the hole doping in 2D TMDs,namely charge transfer from absorbed oxygen molecules,surface oxides,and chalcogen atom substitution.This work provides insights into the doping effects of oxygen,enabling the engineering of 2D TMDs properties for nanoelectronic applications. | Qijie Liang Jian Gou Arramel Qian Zhang Wenjing Zhang Andrew Thye Shen Wee | 2020 | Nano Research2020，13，12： | 4 |
| 8 | Shift current bulk photovoltaic effect in polar materials—hybrid and oxide perovskites and beyond显示文摘The bulk photovoltaic effect(BPVE)refers to the generation of a steady photocurrent and above-bandgap photovoltage in a single-phase homogeneous material lacking inversion symmetry.The mechanism of BPVE is decidedly different from the typical p-n junction-based photovoltaic mechanism in heterogeneous materials.Recently,there has been renewed interest in ferroelectric materials for solar energy conversion,inspired by the discovery of above-bandgap photovoltages in ferroelectrics,the invention of low bandgap ferroelectric materials and the rapidly improving power conversion efficiency of metal halide perovskites.However,as long as the nature of the BPVE and its dependence on composition and structure remain poorly understood,materials engineering and the realisation of its true potential will be hampered.In this review article,we survey the history,development and recent progress in understanding the mechanisms of BPVE,with a focus on the shift current mechanism,an intrinsic BPVE that is universal to all materials lacking inversion symmetry.In addition to explaining the theory of shift current,materials design opportunities and challenges will be discussed for future applications of the BPVE. | Liang Z Tan Fan Zheng Steve M Young Fenggong Wang Shi Liu Andrew M Rappe | 2016 | npj Computational Materials2016，，1： | 4 |
| 9 | Non-junctional Cx32 mediates anti-apoptotic and pro-tumor effects via epidermal growth factor receptor in human cervical cancer cells显示文摘OBJECTIVE To investigate the role of connexin proteins(Cx),which form gap junctions(GJ),in progression and chemotherapeutic sensitivity of cervical cancer(CaC x).METHODS We analyze the expression of Cx26,Cx30,Cx32 and Cx43 in human specimens consisting of:Normal cervix(n=78),CaCx FIGO stageⅠ(n=148),CaCx FIGO stageⅡ(n=165).In CaCx cell lines,Hela-Cx32(induced expression by doxycycline),C-33A(endogenously express Cx32)and si Ha(transiently transfected plasmid with Cx32),we detected the role of Cx32 against tostreptonigrin/cisplatin-induced apopotosisin presence or absence of functional GJ through using GJ inhibitors or low density cultural.Furtherly,we observed the relativity of Cx32 and EGFR expression in human specimens.Also,we detected the role of EGFR signaling pathway in the process of Cx32 anti-apoptosis through suppressed EGFR expression by inhibitors or si RNA sequences in cell lines.RESULTS We firstly demonstrated the expression of Cx32 was highly upregulated and accumulated in cytoplasm in the CaCx specimens,and the degree of upregulation correlated with advanced FIGO stages.Thus,in three human cervical cell lines,Cx32 was shown to suppress apoptosis when GJ formation is inhibited.No matter in cases of CaCx or cell lines,Cx32 expression was highly correlated with expression of EGFR and the EGFR pathway is an essential component of the Cx32-induced anti-apoptotic effect.CONCLUSION Cx32,traditionally tumor suppressive protein,was shown to be tumor protective against chemotherapy through EGFR pathway in a GJ-independent way. | Yi-fan ZHAO Yong-chang LAI Hui GE Yun-quan GUO Xue FENG Jia SONG Qin WANG Li-xia FAN Andrew L HARRIS Xi-yan WANG Liang TAO | 2017 | 中国药理学与毒理学杂志2017，31，10： | 3 |
| 10 | Erucine suppresses ethanol intake and preference in alcohol-preferring Fawn-Hooded rats显示文摘 | Yu-ling LI Qing LIU Qi GONG Jun-xu LI Shou-peng WEI Yan-ting WANG Hui LIANG Min ZHANG Li JING ZhengYONG Andrew J LAWRENCE Jian-hui LIANG | 2014 | Acta Pharmacologica Sinica2014，35，7： | 3 |
| 11 | Progress in TILLING as a tool for functional genomics and improvement of crops显示文摘Food security is a global concern and substantial yield increases in crops are required to feed the growing world population. Mutagenesis is an important tool in crop improvement and is free of the regulatory restrictions imposed on genetically modified organisms. Targeting Induced Local Lesions in Genomes(TILLING), which combines traditional chemical mutagenesis with high‐throughput genome‐wide screening for point mutations in desired genes, offers a powerful way to create novel mutant alleles for both functional genomics and improvement of crops. TILLING is generally applicable to genomes whether small or large, diploid or evenallohexaploid, and shows great potential to address the major challenge of linking sequence information to the function of genes and to modulate key traits for plant breeding. TILLING has been successfully applied in many crop species and recent progress in TILLING is summarized below, especially on the developments in mutation detection technology, application of TILLING in gene functional studies and crop breeding. The potential of TILLING/EcoTILLING for functional genetics and crop improvement is also discussed. Furthermore, a small‐scale forward strategy including backcross and selfing was conducted to release the potential mutant phenotypes masked in M2(or M3) plants. | Liang Chen Liugen Hao Martin A. J. Parry Andrew L. Phillips Yin-Gang Hu | 2014 | Journal of Integrative Plant Biology2014，56，5： | 3 |
| 12 | Quantification of occlusions influencing the tree stem curve retrieving from single-scan terrestrial laser scanning data显示文摘Background: The stem curve of standing trees is an essential parameter for accurate estimation of stem volume.This study aims to directly quantify the occlusions within the single-scan terrestrial laser scanning(TLS) data,evaluate its correlation with the accuracy of the retrieved stem curves, and subsequently, to assess the capacity of single-scan TLS to estimate stem curves.Methods: We proposed an index, occlusion rate, to quantify the occlusion level in TLS data. We then analyzed three influencing factors for the occlusion rate: the percentage of basal area near the scanning center, the scanning distance and the source of occlusions. Finally, we evaluated the effects of occlusions on stem curve estimates from single-scan TLS data.Results: The results showed that the correlations between the occlusion rate and the stem curve estimation accuracies were strong(r = 0.60–0.83), so was the correlations between the occlusion rate and its influencing factors(r = 0.84–0.99). It also showed that the occlusions from tree stems were the main factor of the low detection rate of stems, while the non-stem components mainly influenced the completeness of the retrieved stem curves.Conclusions: Our study demonstrates that the occlusions significantly affect the accuracy of stem curve retrieval from the single-scan TLS data in a typical-size(32 m × 32 m) forest plot. However, the single-scan mode has the capacity to accurately estimate the stem curve in a small forest plot(< 10 m × 10 m) or a plot with a lower occlusion rate, such as less than 35% in our tested datasets. The findings from this study are useful for guiding the practice of retrieving forest parameters using single-scan TLS data. | Peng Wan Tiejun Wang Wuming Zhang Xinlian Liang Andrew K.Skidmore Guangjian Yan | 2019 | Forest Ecosystems2019，6，4： | 2 |
| 13 | Desiccation tolerance in bryophytes: the rehydration proteomes of Bryum argenteum provide insights into the resuscitation mechanism显示文摘Bryum argenteum Hedw. is a desiccation tolerant bryophyte and belongs to one of the most important components of the biological soil crusts(BSCs) found in the deserts of Central Asia. Limited information is available on rehydration-responsive proteins in desiccation tolerant plants. As a complement to our previous research analyzing the rehydration transcriptome, we present a parallel quantitative proteomic effort to study rehydration-responsive proteins. Bryophyte gametophores were desiccated(Dry) and rehydrated for 2 h(R2) and 24 h(R24). Proteins from Dry, R2 and R24 gametophores were labeled by isobaric tags for relative and absolute quantitation(iTRAQ) to determine the relative abundance of rehydration-responsive proteins. A total of 5503 non-redundant protein sequences were identified and 4772(86.7%) protein sequences were annotated using Gene Ontology(GO) terms and Pfam classifications. Upon rehydration 239 proteins were elevated and 461 proteins were reduced as compared to the desiccated protein sample. Differentially up-regulated proteins were classified into a number of categories including reactive oxygen species scavenging enzymes, detoxifying enzymes, Late Embryogenesis Abundant(LEA) proteins, heat shock proteins, proteasome components and proteases, and photosynthesis and translation related proteins. Furthermore, the results of the correlation between transcriptome and proteome revealed the discordant changes in the expression between protein and mRNA. | GAO Bei ZHANG Daoyuan LI Xiaoshuang YANG Honglan LIANG Yuqing CHEN Moxian ZHANG Yuanming ZHANG Jianhua Andrew WOOD | 2018 | Journal of Arid Land2018，10，1： | 2 |
| 14 | Taking the pulse of COVID-19:a spatiotemporal perspective显示文摘The sudden outbreak of the Coronavirus disease(COVID-19)swept across the world in early 2020,triggering the lockdowns of several billion people across many countries,including China,Spain,India,the U.K.,Italy,France,Germany,Brazil,Russia,and the U.S.The transmission of the virus accelerated rapidly with the most confirmed cases in the U.S.,India,Russia,and Brazil.In response to this national and global emergency,the NSF Spatiotemporal Innovation Center brought together a taskforce of international researchers and assembled implementation strategies to rapidly respond to this crisis,for supporting research,saving lives,and protecting the health of global citizens.This perspective paper presents our collective view on the global health emergency and our effort in collecting,analyzing,and sharing relevant data on global policy and government responses,human mobility,environmental impact,socioeconomical impact;in developing research capabilities and mitigation measures with global scientists,promoting collaborative research on outbreak dynamics,and reflecting on the dynamic responses from human societies. | Chaowei Yang Dexuan Sha Qian Liu Yun Li Hai Lan Weihe Wendy Guan Tao Hu Zhenlong Li Zhiran Zhang John Hoot Thompson Zifu Wang David Wong Shiyang Ruan Manzhu Yu Douglas Richardson Luyao Zhang Ruizhi Hou You Zhoua Cheng Zhong Yifei Tian Fayez Beaini Kyla Carte Colin Flynn Wei Liu Dieter Pfoser Shuming Bao Mei Li Haoyuan Zhang Chunbo Liu Jie Jiang Shihong Du Liang Zhao Mingyue Lu Lin Li Huan Zhou Andrew Ding | 2020 | International Journal of Digital Earth2020，13，10： | 2 |
| 15 | Comparative outcomes of subcutaneous and transvenous cardioverter-defibrillators显示文摘Background: The comparative outcomes of subcutaneous implantable cardioverter-defibrillator (S-ICD) and transvenous (T-ICD) have not been well studied. The aim of this study was to evaluate the safety and efficacy of currently available S-ICD and T-ICD. Methods: The study included 86 patients who received an S-ICD and 1:1 matched to those who received single-chamber T-ICD by gender, age, diagnosis, left ventricular ejection fraction (LVEF), and implant year. The clinical outcomes and implant complications were compared between the two groups. Results: The mean age of the 172 patients was 45 years, and 129 (75%) were male. The most common cardiac condition was hypertrophic cardiomyopathy (HCM, 37.8%). The mean LVEF was 50%. At a mean follow-up of 23 months, the appropriate and inappropriate ICD therapy rate were 1.2% vs. 4.7%(X^2= 1.854, P=0.368) and 9.3% vs. 3.5%(X^2 = 2.428, P = 0.211) in S-ICD and T-ICD groups respectively. There were no significant differences in device-related major and minor complications between the two groups (7.0% vs. 3.5%, X^2 = 1.055, P = 0.496). The S-ICD group had higher T-wave oversensing than T-ICD group (9.3% vs. 0%, X^2 = 8.390, P=0.007). Sixty-five patients had HCM (32 in S-ICD and 33 in T-ICD). The incidence of major complications was not significantly different between the two groups. Conclusions: The efficacy of an S-ICD is comparable to that of T-ICD, especially in a dominantly HCM patient population. The S-ICD is assodated with fewer major complications demanding reoperation. | Jin-Jun Liang Hideo Okamura Roshini Asirvatham Andrew Schneider David O. Hodge Mei Yang Xu-Ping Li Ming-Yan Dai Ying Tian Pei Zhang Bryan C. Cannon Cong-Xin Huang Paul A. Friedman Yong-Mei Cha | 2019 | Chinese Medical Journal2019，，6： | 2 |
| 16 | WntSa in- hibits B cell proliferation and functions as a tumor suppressor in hematopoietic tissue显示文摘 | Huiling Liang Qin Chen 4 Andrew H Coles | 2003 | Cancer Cell2003，4，5： | 1 |
| 17 | Reference genome sequence of the model plant Setaria显示文摘 | Jeffrey L Bennetzen Jeremy Schmutz Hao Wang RyanPercifield Jennifer Hawkins Ana C Pontaroli Matt Estep Liang Feng Justin N Vaughn Jane Grimwood JerryJenkins Kerrie Barry Erika Lindquist Uffe Hellsten Shweta Deshpande Xuewen Wang Xiaomei Wu ThereseMitros Jimmy Triplett Xiaohan Yang Chu-Yu Ye Margarita Mauro-Her-rera Lin Wang Pinghua Li ManojSharma Rita Sharma Pamela C Ronald Olivier Panaud Elizabeth A Kellogg Thomas P Brutnell Andrew NDoust Gerald A Tuskan Daniel Rokhsar Katrien MDevos | 2012 | Nature Biotechnology2012，，30： | 1 |
| 18 | Expression of the Aquaporin-1 Water Channel in Human Glial Tumors显示文摘 | Kotaro Oshio Devin K. Binder Yu Liang Andrew Bollen Burt Feuerstein Mitchel S. Berger Geoffrey T. Manley | 2005 | Neurosurgery2005，，2： | 1 |
| 19 | Narrowband to broadband conversions of land surface albedo ( Ⅱ ) : Validation 显示文摘 | Liang Shunlin Chen J S Andrew L R | 2003 | Remote Sensing of Enviroment2003，84，1： | 1 |
| 20 | An Architecture and Compiler for Scalable On-Chip Communication 显示文摘 | Jian Liang Andrew Laffely | 2004 | IEEE Transactions on Very Large Scale Integration Systems2004，12，7： | 1 |
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