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Light Hadrons at Finite Temperature in the Linear Sigma Model

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Chinese Physics Letters 1997年第9期14卷 645-647页

作者： CHEN Hong LIU Bo JIANG huan-qing Department of Physics Southwest China Normal UniversityChongqing 630715 Institute of High Energy Physics Chinese Academy of SciencesBeijing 100039

The vacuum properties at finite temperature for the linear sigma model are studied by using the effective potential *** is found that the light hadronic masses drop fast with increasing *** extensive scaling behavior ... 详细信息

关键词： temperature. scaling vacuum

HeteroMeth： A Database of Cell-to-cell Heterogeneity in DNA Methylation

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Genomics, Proteomics & Bioinformatics 2018年第4期16卷 234-243页

作者： qing huan Yuliang Zhang Shaohuan Wu Wenfeng Qian State Key Laboratory of Plant Genomics Institute of Genetics and Developmental Biology Chinese Academy of SciencesBeijing 100101China Key Laboratory of Genetic Network Biology Institute of Genetics and Developmental Biology Chinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China

DNA methylation is an important epigenetic mark that plays a vital role in gene expression and cell differentiation. The average DNA methylation level among a group of cells has been extensively documented. However, the cell-to-cell heterogeneity in DNA methylation, which reflects the differentiation of epigenetic status among cells, remains less investigated. Here we established a gold standard of the cell-to-cell heterogeneity in DNA methylation based on single-cell bisulfite sequencing （BS-seq） data. With that, we optimized a computational pipeline for estimating the heterogeneity in DNA methylation from bulk BS-seq data. We further built HeteroMeth, a database for searching, browsing, visualizing, and downloading the data for heterogeneity in DNA methylation for a total of 141 samples in humans, mice, Arabidopsis, and rice. Three genes are used as examples to illustrate the power of HeteroMeth in the identification of unique features in DNA methylation. The optimization of the computational strategy and the construction of the database in this study complement the recent experimental attempts on single-cell DNA methylomes and will facilitate the understanding of epigenetic mechanisms underlying cell differentiation and embryonic development. HeteroMeth is publicly available at http：//***/HeteroMeth.

关键词： Cell-to-cell heterogeneity DNA methylation Bisulfite sequencing Single cell Shannon entropy

基于一阶差分光谱的海水硝酸盐氮与亚硝酸盐氮测量方法

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光谱学与光谱分析 2025年第1期45卷 45-51页

作者：梁星辉冯巍巍蔡宗岐王焕卿杨剑炼中国科学院烟台海岸带研究所中国科学院海岸带环境过程与生态修复重点实验室山东烟台264003 山东省海岸带环境过程重点实验室山东烟台264003 中国科学院大学北京100049

硝酸盐氮与亚硝酸盐氮是海洋水质监测的重点参数,也是研究海洋氮循环的重要参考。紫外吸收光谱法操作简单,响应快速,适用于多种水质参数监测,但测量中硝酸盐氮与亚硝酸盐氮存在混叠干扰以及海水离子干扰。提出了一种硝酸盐氮与亚硝酸盐... 详细信息

硝酸盐氮与亚硝酸盐氮是海洋水质监测的重点参数,也是研究海洋氮循环的重要参考。紫外吸收光谱法操作简单,响应快速,适用于多种水质参数监测,但测量中硝酸盐氮与亚硝酸盐氮存在混叠干扰以及海水离子干扰。提出了一种硝酸盐氮与亚硝酸盐氮快速测量方法,对光谱进行一阶差分等预处理,使用相关系数搜索进行波段优化,使用BP神经网络进行浓度反演,模型的预测值与真实值线性相关系数为0.998。与国外同类设备进行了比对测试,两者线性相关系数为0.982。参加了烟台市海洋环境监测预报中心2023年夏季航次,进行了应用测试,与实验室方法进行了比对分析,两者线性相关系数为0.902,说明本方法能够实现海水硝酸盐氮与亚硝酸盐氮的快速测量,为后续原位监测仪器的研制提供参考。

关键词：硝酸盐氮亚硝酸盐氮紫外吸收光谱一阶差分 BP神经网络

Leptonic Decay of J/ψ Y

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Chinese Physics Letters 1998年第12期15卷 871-873页

作者： LIU Bo SHEN Peng-nian JIANG huan-qing Institute of High Energy Physics Chinese Academy of SciencesBeijing 100039

A more realistic non-relativistic quark-quark potential in the thermal and dense medium is proposed and used to study the laptonic decay of J/ψ.The laptonic decay property of J/ψin the hot and dense matter depends on the form of the binding *** decay width in the potential case is much sensitive to the temperature than that in the Karsch’s potential case,especially in the lower temperature *** both cases,the decay widths decreased with the increasing temperature and *** resultant critical temperature of 200 MeV is consistent with the lattice quantum chromodynamics finding.

关键词： potential. density. decay

Transcriptome-wide Analysis Of Vernalization Reveals Conserved and Species-specific Mechanisms in Brachypodium

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Journal of Integrative Plant Biology 2013年第8期55卷 696-709页

作者： qing huan Zhiwei Mao Jingyu Zhang Yunyuan Xu Kang Chong Key Laboratory of Plant Molecular Physiology Institute of Botanythe Chinese Academy of Sciences University of Chinese Academy of Sciences the Chinese Academy of Sciences

Several temperate cereals need vernalization to promote flowering. Little, however, is known about the vernalization-memory-related genes, and almost no comparative analysis has been performed. Here, RNA- Seq was used for transcriptome analysis in non-vernalized, vernalized and post-vernalized Brachypodium distachyon （L.） Beauv. seedlings. In total, the expression of 1,665 genes showed significant changes （fold change 〉4） in response to vernalization. Among them, 674 putative vernalization-memory-related genes with a constant response to vernalization were significantly enriched in transcriptional regulation and monooxygenase-mediated biological processes. Comparative analysis of vernalization-memory-related genes with barley demonstrated that the oxidative-stress response was the most conserved pathway between these two plant species. Moreover, Brachypodium preferred to regulate transcription and protein phosphorylation processes, while vernalization-memory-related genes, whose products are cytoplasmic membrane-bound-vesicle-located proteins, were preferred to be regulated in barley. Correlation analysis of the vernalization-related genes with barley revealed that the vernalization mechanism was conserved between these two plant species. In summary, vernalization, including its memory mechanism, is conserved between Brachypodium and barley, although several species-specific features also exist. The data reported here will provide primary resources for subsequent functional research in vernalization.

关键词： Brachypodium comparative analysis RNA-Seq vernalization.

Proteomic Analysis of the Hippocampus in Mouse Models of Trigeminal Neuralgia and Inescapable Shock-Induced Depression

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Neuroscience Bulletin 2018年第1期34卷 74-84页

作者： qing-huan Guo qing-He Tong Ning Lu Hong Cao Liu Yang Yu-Qiu Zhang Institutes of Brain Science State Key Laboratory of Medical Neurobiology and Collaborative Innovation Center for Brain Science Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences Fudan University

To investigate the behavioral and biomolecular similarity between neuralgia and depression, a trigeminal neuralgia （TN） mouse model was established by constriction of the infraorbital nerve （CION） to mimic clinical trigeminal neuropathic pain. A mouse learned helplessness （LH） model was developed to investigate inescapable footshock-induced psychiatric disorders like depression in humans. Mass spectrometry was used to assess changes in the biomolecules and signaling pathways in the hip- pocampus from TN or LH mice. TN mice developed not only significant mechanical allodynia but also depressive- like behaviors （mainly behavioral despair） at 2 weeks after CION, similar to LH mice. MS analysis demonstrated common and distinctive protein changes in the hippocampus between groups. Many protein function families （such as cell-to-cell signaling and interaction, and cell assembly and organization,） and signaling pathways （e.g., the Huntington＇s disease pathway） were involved in chronic neuralgia and depression. Together, these results demonstrated that the LH and TN models both develop depressive-like behaviors, and revealed the involvement of manypsychiatric disorder-related biomolecules/pathways in the pathogenesis of TN and LH.

关键词： Trigeminal neuralgia - Learned helplessness Depression Allodynia Mass spectrometry

Evidence for a mouse origin of the SARS-CoV-2 Omicron variant

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Journal of Genetics and Genomics 2021年第12期48卷 1111-1121页

作者： Changshuo Wei Ke-Jia Shan Weiguang Wang Shuya Zhang qing huan Wenfeng Qian State Key Laboratory of Plant Genomics Institute of Genetics and Developmental BiologyInnovation Academy for Seed DesignChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China

The rapid accumulation of mutations in the SARS-CoV-2 Omicron variant that enabled its outbreak raises questions as to whether its proximal origin occurred in humans or another mammalian host. Here, we identified 45 point mutations that Omicron acquired since divergence from the B.1.1 lineage. We found that the Omicron spike protein sequence was subjected to stronger positive selection than that of any reported SARS-CoV-2 variants known to evolve persistently in human hosts, suggesting a possibility of hostjumping. The molecular spectrum of mutations(i.e., the relative frequency of the 12 types of base substitutions) acquired by the progenitor of Omicron was significantly different from the spectrum for viruses that evolved in human patients but resembled the spectra associated with virus evolution in a mouse cellular environment. Furthermore, mutations in the Omicron spike protein significantly overlapped with SARS-CoV-2 mutations known to promote adaptation to mouse hosts, particularly through enhanced spike protein binding affinity for the mouse cell entry receptor. Collectively, our results suggest that the progenitor of Omicron jumped from humans to mice, rapidly accumulated mutations conducive to infecting that host,then jumped back into humans, indicating an inter-species evolutionary trajectory for the Omicron outbreak.

关键词： SARS-CoV-2 Omicron Evolutionary origins Molecular spectrum of mutations Spike-ACE2 interaction Receptor-binding domain

Expression and Immunoreactivity of a Human Group A Rotavirus Vp4

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中国病毒学 2007年第4期22卷 287-293页

作者： qing-huan ZHAO Yu-ling WEN Yang YU qing DAI Yuan-ding CHEN Institute of Medical Biology of Chinese Academy Medical Sciences ＆Peking Union Medical College Kunming650118 China

Rotavirus capsid protein Vp4 plays an important role in the virus adhering and entering the cells. In this study, a Vp4 gene cloned from a rotavirus strain TB-Chen was highly expressed in *** BL21 (DE3). The results of the Western blot showed that the protein possesses specific immuno-reactivities and can be specifically recognized by guinea pig antibodies against rotavirus strain SA11 or Wa. Some Vp4 dimers were formed during renaturation. These data obtained from this study provide a strong basis for further study on the structure and function of the Vp4.

关键词：人类轮状病毒Vp4 原核表达免疫活性基因表达

Host-specific asymmetric accumulation of mutation types reveals that the origin of SARS-CoV-2 is consistent with a natural process

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The Innovation 2021年第4期2卷 43-55页

作者： Ke-Jia Shan Changshuo Wei Yu Wang qing huan Wenfeng Qian State Key Laboratory of Plant Genomics Institute of Genetics and Developmental BiologyInnovation Academy for Seed DesignChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China

The capacity of RNA viruses to adapt to new hosts and rapidly escape the host immune system is largely attributable to de novo genetic diversity that emerges through mutations in *** the molecular spectrum of de novo mutations—the relative rates at which various base substitutions occur—are widely recognized as informative toward understanding the evolution of a viral genome,little attention has been paid to the possibility of using molecular spectra to infer the host origins of a ***,we characterize the molecular spectrum of de novo mutations for SARS-CoV-2 from transcriptomic data obtained from virus-infected cell lines,enabled by the use of sporadic junctions formed during discontinuous transcription as molecular *** find that de novo mutations are generated in a replication-independent manner,typically on the genomic strand,and highly dependent on mutagenic mechanisms specific to the host cellular *** novo mutations will then strongly influence the types of base substitutions accumulated during SARS-CoV-2 evolution,in an asymmetric manner favoring specific mutation ***,similarities between the mutation spectra of SARS-CoV-2 and the bat coronavirus RaTG13,which have accumulated since their divergence strongly suggest that SARS-CoV-2 evolved in a host cellular environment highly similar to that of bats before its zoonotic transfer into ***,our findings provide data-driven support for the natural origin of SARS-CoV-2.

关键词： SARS-CoV-2 molecular spectrum de novo mutations mutational signature evolutionary origin mRNA mutation