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| 1 | 5-Hydroxymethylcytosine signatures in circulating cell-free DNA as diagnostic biomarkers for human cancers显示文摘象 5-methylcytosine (5mC ) 和 5-hydroxymethylcytosine (5hmC ) 那样的 DNA 修正是知道在哺乳动物影响全球基因表示的 epigenetic 标记。在人的染色体,与基因表示的靠近的关联和高化学的稳定性给他们的流行,这些 DNA epigenetic 标记能为癌症用作理想的 biomarkers 诊断。利用一种高度敏感、选择的化学标记技术,我们这里报导在传播没有房间的 DNA ( cfDNA )并且在从最近与 colorectal 诊断的 260 个病人的一个队收集的配对的肿瘤和邻近的纸巾的 genomic DNA ( gDNA )的 5hmC 的染色体宽的介绍,胃,胰腺,从 90 个健康个人的肝或甲状腺癌症和正常纸巾。5hmC 主要在与开的染色质和容许的 histone 修正重合的 transcriptionally 活跃的区域被散布。柔韧的联系癌症的 5hmC 签名在 cfDNA 被识别为特定的癌症类型是特征的。传播 cfDNA 的 5hmC 底 biomarkers colorectal 和胃的癌症是高度预兆的并且比常规 biomarkers 优异并且比得上从织物活体检视的 5hmC biomarkers。因此,这新策略能从血样品的分析为癌症的诊断和预后导致有效、最低限度地侵略的方法的发展。 | Wenshuai Li Xu Zhang Xingyu Lu Lei You Yanqun Song Zhongguang Luo Jun Zhang Ji Nie Wanwei Zheng Diannan Xu Yaping Wang Yuanqiang Dong Shulin Yu Jun Hong Jianping Shi Hankun Hao Fen Luo Luchun Hua Peng Wang Xiaoping Qian Fang Yuan Lianhuan Wei Ming Cui Taiping Zhang Quan Liao Menghua Dai Ziwen Liu Ge Chen Katherine Meckel Sarbani Adhikari Guifang Jia Marc B Bissonnette Xinxiang Zhang Yupei Zhao Wei Zhang Chuan He Jie Liu | 2017 | Cell Research2017，27，10： | 30 |
| 2 | The dimension and morphology of alveolar bone at maxillaryanterior teeth in periodontitis: a retrospective analysis usingCBCT显示文摘The morphology of the alveolar bone at the maxillary anterior teeth in periodontitis patients was evaluated by cone-beam computed tomography(CBCT) to investigate the distribution of alveolar defects and provide guidance for clinical practice. Ninety periodontitis patients and 30 periodontally healthy individuals were selected to determine the morphology of the alveolar bone at the maxillary anterior teeth according to the degree of bone loss, tooth type, sex and age. The differences in the dimensions between periodontitis patients and healthy individuals were compared, and the distribution of alveolar bone defects was analyzed.A classification system was established regarding the sagittal positions and angulations of the teeth. The buccal residual bone was thicker and the lingual bone was thinner in the periodontitis patients than in the periodontally healthy individuals, and there were differences between the different tooth types, sexes and age subgroups. The buccal undercut was close to the alveolar ridge, while fenestration was reduced and the apical bone height was higher in periodontitis patients than in periodontally healthy individuals.The apical bone height increased with the aggravation of bone loss and age. The proportions of different sagittal positions changed with the aggravation of bone loss. Moreover, the teeth moved more buccally regarding the positions of the maxillary anterior teeth.The morphology of the alveolar bone at the maxillary anterior teeth differed between periodontitis patients and healthy individuals,and the differences were related to the degree of bone loss, tooth type, sex and age. | Xue Zhang Yuchao Li Ziming Ge Haijiao Zhao Lei Miao Yaping Pan | 2020 | International Journal of Oral Science2020，12，1： | 10 |
| 3 | Alpha-2-macroglobulin as a radioprotective agent: a review显示文摘Radiation is an important modality in cancer treatment, and eighty percent of cancer patients need radiotherapy at some point during their clinical management. However, radiation-induced damage to normal tissues restricts the therapeutic doses of radiation that can be delivered to tumours and thereby limits the effectiveness of the treatment. The use of radioprotectors represents an obvious strategy to obtain better tumour control using a higher dose in radiotherapy. However, most of the synthetic radioprotective compounds studied have shown inadequate clinical efficacy owing to their inherent toxicity and high cost. Hence, the development of radioprotective agents with lower toxicity and an extended window of protection has attracted a great deal of attention, and the identification of alternative agents that are less toxic and highly effective is an absolute necessity. Recent studies have shown that alpha-2-macroglobulin(α2M) possesses radioprotective effects. α2M is a tetrameric, disulfide-rich plasma glycoprotein that functions as a nonselective inhibitor of different types of non-specific proteases and as a carrier of cytokines, growth factors, and hormones. α2M induces protein factors whose interplay underlies radioprotection, which supports the idea that α2M is the central effector of natural radioprotection in the rat. Pretreatment with α2M has also induced a significant reduction of irradiation-induced DNA damage and the complete restoration of liver and body weight. Mihailovi? et al. concluded that the radioprotection provided by α2M was in part mediated through cytoprotection of new blood cells produced in the bone marrow; these authors also indicated that an important aspect of the radioprotective effect of amifostine was the result of the induction of the endogenous cytoprotective capability of α2M. The radioprotective effects of α2M are possibly due to antioxidant, antifibrosis, and anti-inflammatory functions, as well as the maintenance of homeostasis, and enhancement of the DNA repair and cell recovery processes. This review is the first to summarise the observations and elucidate the possible mechanisms responsible for the beneficial effects of α2M. The lacunae in the existing knowledge and directions for future research are also addressed. | Xueying Chen Xiangbo Kong Zhaoqiang Zhang Wei Chen Jieyu Chen Huanyang Li Wanting Cao Yaping Ge Silian Fang | 2014 | Chinese Journal of Cancer Research2014，26，5： | 7 |
| 4 | Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies显示文摘Neutralizing monoclonal antibodies(nAbs)to severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)represent promising candidates for clinical intervention against coronavirus disease 2019(COVID-19).We isolated a large number of nAbs from SARS-CoV-2-infected individuals capable of disrupting proper interaction between the receptor binding domain(RBD)of the viral spike(S)protein and the receptor angiotensin converting enzyme 2(ACE2).However,the structural basis for their potent neutralizing activity remains unclear.Here,we report cryo-EM structures of the ten most potent nAbs in their native full-length IgG-form or in both IgG-form and Fab-form bound to the trimeric S protein of SARS-CoV-2.The bivalent binding of the full-length IgG is found to associate with more RBDs in the“up”conformation than the monovalent binding of Fab,perhaps contributing to the enhanced neutralizing activity of IgG and triggering more shedding of the S1 subunit from the S protein.Comparison of a large number of nAbs identified common and unique structural features associated with their potent neutralizing activities.This work provides a structural basis for further understanding the mechanism of nAbs,especially through revealing the bivalent binding and its correlation with more potent neutralization and the shedding of S1 subunit. | Renhong Yan Ruoke Wang Bin Ju Jinfang Yu Yuanyuan Zhang Nan Liu Jia Wang Qi Zhang Peng Chen Bing Zhou Yaning Li Yaping Shen Shuyuan Zhang Long Tian Yingying Guo Lu Xia Xinyue Zhong Lin Cheng Xiangyang Ge Juanjuan Zhao Hong-Wei Wang Xinquan Wang Zheng Zhang Linqi Zhang Qiang Zhou | 2021 | Cell Research2021，31，5： | 4 |
| 5 | The Rice'NUTRITION RESPONSE AND ROOT GROWTH' (NRR) Gene Regulates Heading Date显示文摘Dear Editor, As one of the most important developmental traits,flowering time has been extensively investigated in the long-day plant Arabidopsis.Multiple factors are involved,including photoperiod and/or temperature (Amasino,2010).Flowering locus T (FT) is known to be an important integrator of different flowering pathways (Taoka et al.,2011).Genes of the CONSTANS (CO) family also play key roles in regulating flowering time.The CO protein consists of a zinc finger and a CCT domain shared by a group of plant-specific transcription factors that regulate photoperiodic flowering response and circadian rhythms in Arabidopsis.In the case of short-day plants such as rice,previous studies have also revealed a number of genes that control heading date,such as the CO ortholog Heading date 1 (Hdl) and,at its downstream,Heading date 3a (Hd3a),an ortholog of FT (Kojima et al.,2002;Komiya et al.,2008).Although the main photoperiodic flowering regulators are highly conserved between Arabidopsis and rice,there are genes that act differently relating to the daylength property of rice,such as Early heading datel (Ehdl),Indeterminate1 (OslD1),the MADS-box gene OsMADS51 (Doiet al.,2004;Kim et al.,2007;Park et al.,2008),and Ghd7 (Xue et al.,2008). | Yuman Zhang Ge Zhang Na Xiao Lina Wang Yaping Fu Zongxiu Sun Rongxiang Fang Xiaoying Chen | 2013 | Molecular Plant2013，6，2： | 3 |
| 6 | Transcriptome and metabolomics analysis revealed that CmWRKY49 regulating CmPSY1 promotes β-carotene accumulation in orange fleshed oriental melon显示文摘The flesh color of oriental melons is an important commercial trait that affects consumer preferences.To explore the mechanisms underlying the flesh color formation and regulation during fruit ripening,carotenoid-targeted metabolomic and RNA-seq analysis were conducted between white-fleshed(WF) and orange-fleshed(OF) oriental melon cultivars at different stages.The carotenoid-targeted metabolomic analysis indicated that β-carotene was the major metabolite that caused differences in flesh color between the two cultivars.Additionally,through KEGG pathway enrichment and weighted gene co-expression network(WGCNA) analysis,metabolic pathways and related transcription factors that are associated with carotenoid metabolism were selected and transcriptome data was verified using RT-qPCR.Finally,the yeast one hybrid and luciferase activity showed that the transcription factor CmWRKY49 could directly bind to the CmPSY1 promoter to activate its expression in the ’OF’ cultivar.Transient overexpression of CmWRKY49 in ’OF’ cultivar increased the β-carotene content,while the β-carotene content decreased when it was silenced in the same cultivar.This study provides insights into the underlying regulatory network of carotenoid metabolism in oriental melon fruit. | Xiaoyu Duan Cai Jiang Yaping Zhao Ge Gao Meng Li Hongyan Qi | 2022 | Horticultural Plant Journal2022，8，5： | 3 |
| 7 | Biodegradation of N,N-dimethylacetamide by Rhodococcus sp.strain B83 isolated from the rhizosphere of pagoda tree显示文摘The biodegradation characteristic and potential metabolic pathway for removal of environmental N,N-dimethylacetamide(DMAC) by Rhodococcus sp. strain B83 was studied.Rhodococcus sp. strain B83 was isolated from the rhizosphere of a pagoda tree and proved capable of utilizing DMAC as sole source of carbon and nitrogen. Batch culture studies showed that strain B83 could tolerate up to 25 g/L DMAC and showed distinct growth on possible catabolic intermediates except for acetate. The nitrogen balance analysis revealed that approximately 71% of the initial nitrogen was converted to organic nitrogen. DMAC degradation has led to accumulation of acetate and organic nitrogen, meanwhile traces of nitrate and ammonia was build-up but without nitrite. The growth of strain B83 could be inhibited by adding exogenous acetate. By means of the assay of enzymatic degradation of DMAC, several catabolic intermediates at different intervals were observed and identified.Based on the results obtained from culture solution and enzymatic degradation assay, a detailed pathway is proposed for DMAC biodegradation. | Xingdu Chen Chengjian Yang Weiwei Wang Bizhou Ge Jun Zhang Yucan Liu Yaping Nan | 2017 | Journal of Environmental Sciences2017，29，3： | 3 |
| 8 | Three-dimensional silk fibroin scaffolds enhance the bone formation and angiogenic differentiation of human amniotic mesenchymal stem cells:a biocompatibility analysis显示文摘Silk fibroin(SF)is a fibrous protein with unique mechanical properties,adjustable biodegradation,and the potential to drive differentiation of mesenchymal stem cells(MSCs)along the osteogenic lineage,making SF a promising scaffold material for bone tissue engineering.In this study,hAMSCs were isolated by enzyme digestion and identified by multiple-lineage differentiation.SF scaffold was fabricated by freeze-drying,and the adhesion and proliferation abilities of hAMSCs on scaffolds were determined.Osteoblast differentiation and angiogenesis of hAMSCs on scaffolds were further evaluated,and histological staining of calvarial defects was performed to examine the cocultured scaffolds.We found that hAMSCs expressed the basic surface markers of MSCs.Collagen type I(COLI)expression was observed on scaffolds cocultured with hAMSCs.The scaffolds potentiated the proliferation of hAMSCs and increased the expression of COL-I in hAMSCs.The scaffolds also enhanced the alkaline phosphatase activity and bone mineralization,and upregulated the expressions of osteogeniorelated factors in vitro.The scaffolds also enhanced the an gioge nic differe ntiati on of hAMSCs.The cocultured scaffolds in creased bone formati on in treating critical calvarial defects in mice.This study first demonstrated that the application of 3D SF scaffolds co-cultured with hAMSCs greatly enhaneed osteogenic differentiation and angiogenesis of hAMSCs in vitro and in vivo.Thus,3D SF scaffolds cocultured with hAMSCs may be a better alter native for bone tissue engin eering. | Yuwan Li Ziming Liu Yaping Tang Qinghong Fan Wei Feng Changqi Luo Guangming Dai Zhen Ge Jun Zhang Gang Zou Yi Liu Ning Hu Wei Huang | 2020 | Acta Biochimica et Biophysica Sinica2020，52，6： | 2 |
| 9 | Gambogic acid induces apoptosis in hepatocellular carcinoma SMMC-7721 cells by targeting cytosolic thioredoxin reductase显示文摘 | Dongzhu Duan Baoxin Zhang Juan Yao Yaping Liu Jinyu Sun Chunpo Ge Shoujiao Peng Jianguo Fang | 2014 | Free Radical Biology and Medicine2014，，： | 1 |
| 10 | Sunlight-assisted degrada- tion of dye pollutants in Ag3PO4 suspension 显示文摘 | Ge Ming Zhu Na Zhao Yaping | 2012 | Industrial & Eng- ineering Chemistry Research2012，51，14： | 1 |
| 11 | Aristolochic acids exposure was not the main cause of liver tumorigenesis in adulthood显示文摘Aristolochic acids(AAs) have long been considered as a potent carcinogen due to its nephrotoxicity. Aristolochic acid I(AAI) reacts with DNA to form covalent aristolactam(AL)-DNA adducts,leading to subsequent A to T transversion mutation, commonly referred as AA mutational signature. Previous research inferred that AAs were widely implicated in liver cancer throughout Asia. In this study, we explored whether AAs exposure was the main cause of liver cancer in the context of HBV infection in China's Mainland. Totally 1256 liver cancer samples were randomly retrieved from 3 medical centers and a refined bioanalytical method was used to detect AAI-DNA adducts. 5.10% of these samples could be identified as AAI positive exposure. Whole genome sequencing suggested 8.41% of 107 liver cancer patients exhibited the dominant AA mutational signature, indicating a relatively low overall AAI exposure rate. In animal models, long-term administration of AAI barely increased liver tumorigenesis in adult mice, opposite from its tumor-inducing role when subjected to infant mice. Furthermore, AAI induced dose-dependent accumulation of AA-DNA adduct in target organs in adult mice, with the most detected in kidney instead of liver. Taken together, our data indicate that AA exposure was not the major threat of liver cancer in adulthood. | Shuzhen Chen Yaping Dong Xinming Qi Qiqi Cao Tao Luo Zhaofang Bai Huisi He Zhecai Fan Lingyan Xu Guozhen Xing Chunyu Wang Zhichao Jin Zhixuan Li Lei Chen Yishan Zhong Jiao Wang Jia Ge Xiaohe Xiao Xiuwu Bian Wen Wen Jin Ren Hongyang Wang | 2022 | Acta Pharmaceutica Sinica B2022，12，5： | 1 |
| 12 | Chronic accumulation of cadmium and its effects on antioxidant enzymes and malondialdehyde in Oxya chinensis (Orthoptera: Acridoidea)显示文摘 | Yuping Zhang Ge Sun Meiling Yang Haihua Wu Jianzhen Zhang Shaojuan Song Enbo Ma Yaping Guo | 2011 | Ecotoxicology and Environmental Safety2011，，5： | 1 |
| 13 | Sunlight-Assisted Degradation of Dye Pollutants in Ag3PO4 Suspension Ind 显示文摘 | Ge Ming Zhu Na Zhao Yaping | 2012 | EngChemRes2012，51，14： | 1 |
| 14 | Enhancement of blue fluorescence on the ZnSe quantum dots doped with transition metal ions显示文摘 | Yaping Zhang Yuhua Shen Xiufang Wang Ling Zhu Bing Han Lanlan Ge Yulun Tao Anjian Xie | 2012 | Materials Letters2012，，： | 1 |
| 15 | Author Correction: 5-Hydroxymethylcytosine signatures in circulating cell-free DNA as diagnostic biomarkers for human cancers显示文摘In the initial published version of this article, there was a mistake in the P value for the correlation between gene-expression changes and 5 hmC changes in tumors. The correct P value should be same as the P value shown in Fig. S6A: 9.8?×?10?6 (mistakenly shown as “9.8?×?106” in the main text). This correction does not affect the description of results or the conclusions of this study, since the range of P value is between 0 and 1. | Wenshuai Li Xu Zhang Xingyu Lu Lei You Yanqun Song Zhongguang Luo Jun Zhang Ji Nie Wanwei Zheng Diannan Xu Yaping Wang Yuanqiang Dong Shulin Yu Jun Hong Jianping Shi Hankun Hao Fen Luo Luchun Hua Peng Wang Xiaoping Qian Fang Yuan Lianhuan Wei Ming Cui Taiping Zhang Quan Liao Menghua Dai Ziwen Liu Ge Chen Katherine Meckel Sarbani Adhikari Guifang Jia Marc B Bissonnette Xinxiang Zhang Yupei Zhao Wei Zhang Chuan He Jie Liu | 2019 | Cell Research2019，29，7： | 1 |
| 16 | Sunlight-assisted degradation of dye pollutants in Ag3PO4suspension显示文摘 | Ge Ming Zhu Na Zhao Yaping | 2012 | Ind Eng Chem Res2012，51，14： | 1 |
| 17 | Winding Function Theory Based Thrust Calculation on Nested-loop Secondary Linear Machine Adapted to Linear Metro显示文摘With advantages of strong drive capability,nested-loop secondary linear machine(NLS-LM)has great potentiality in linear metro.For its secondary structure with multiple loops,it is difficult to calculate the electromagnetic thrust of NLS-LM reasonably.Hence,in this paper,one thrust calculation method is proposed considering variable loop inductance and transient loop current.Firstly,to establish the secondary winding function,the modeling domain is confined to a limited range,and the equivalent loop span is employed by analyzing the coupling relationship between primary and secondary.Then,in order to obtain the secondary flux density,the transient secondary current is solved based on the loop impedance and induced voltage.Finally,the electromagnetic thrust can be calculated reasonably by the given primary current sheet and the calculated secondary flux density.Comprehensive simulations and experiments have demonstrated the effectiveness of the proposed method. | Yaping Zhang Jian Ge Wei Xu Hao Tang Yang Gao Xiaoliang Chen Shihu Su Zhen Bao | 2023 | CES Transactions on Electrical Machines and Systems2023，7，2： | 0 |
| 18 | Protective effect of Wnt-5a against amyloid beta-induced memory impairment in rats显示文摘Recent studies suggest that the activation of the Wnt signaling pathway improves memory function in rats.This study investigated the effects of Wnt-5a on amyloid β (Aβ)-induced cognitive impairment.Aβ25-35 was injected into the rat right lateral ventricle to induce Alzheimer's disease-associated pathology,and Wnt-5a was injected as a potential therapeutic treatment.Immunofluorescence staining showed that compared with normal rats,Aβ25-35 significantly decreased postsynaptic density-95 protein expression in the rat hippocampal CA1 region,but Wnt-5a pretreatment blocked this decrease.This study shows that Wnt-5a can reduce Aβ-induced cognitive impairment,and that it has the potential to be a new therapeutic strategy for the treatment of Alzheimer's disease. | Guili Zhang Lu Lu Yaping Ge Fang Deng Ying Zhang Jiachun Feng | 2011 | Neural Regeneration Research2011，6，14： | 0 |
| 19 | Corrigendum to“Biogenesis of autophagosomes from the ERGIC membrane system”[Journal of Genetics and Genomics (2023) 50,3-6]显示文摘This corrigendum clarifies statement in the article'Biogenesis of autophagosomes from the ERGIC membrane system'by Han et al.(2023).In the'The role of ERGIC-equivalents and COPll vesicles in autophagy in yeast'section,the statement that'At least one answer is that they remove together components for membrane fusion.'should be corrected into'At least one answer is that they bring components for membrane fusion.'. | Yaping Han Shulin Li Liang Ge | 2023 | Journal of Genetics and Genomics2023，50，4： | 0 |
| 20 | Lack of CFAP54 causes primary ciliary dyskinesia in a mouse model and human patients显示文摘Primary ciliary dyskinesia(PCD)is a highly heterogeneous recessive inherited disorder.FAP54,the homolog of CFAP54 in Chlamydomonas reinhardtii,was previously demonstrated as the C1d projection of the central microtubule apparatus of flagella.A Cfap54 knockout mouse model was then reported to have PCD-relevant phenotypes.Through whole-exome sequencing,compound heterozygous variants c.2649_2657delinC(p.E883Dfs*47)and c.7312_7313insCGCAGGCTGAATTCTTGG(p.T2438delinsTQAEFLA)in a new suspected PCD-relevant gene,CFAP54,were identified in an individual with PCD.Two missense variants,c.4112A>C(p.E1371A)and c.6559C>T(p.P2187S),in CFAP54 were detected in another unrelated patient.In this study,a minigene assay was conducted on the frameshift mutation showing a reduction in mRNA expression.In addition,a CFAP54 in-frame variant knock-in mouse model was established,which recapitulated the typical symptoms of PCD,including hydrocephalus,infertility,and mucus accumulation in nasal sinuses.Correspondingly,two missense variants were deleterious,with a dramatic reduction in mRNA abundance from bronchial tissue and sperm.The identification of PCD-causing variants of CFAP54 in two unrelated patients with PCD for the first time provides strong supportive evidence that CFAP54 is a new PCD-causing gene.This study further helps expand the disease-associated gene spectrum and improve genetic testing for PCD diagnosis in the future. | Xinyue Zhao Haijun Ge Wenshuai Xu Chongsheng Cheng Wangji Zhou Yan Xu Junping Fan Yaping Liu Xinlun Tian Kai-Feng Xu Xue Zhang | 2023 | Frontiers of Medicine2023，17，6： | 0 |
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