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MODELING GENETIC REGULATORY NETWORKS:A DELAY DISCRETE DYNAMICAL MODEL APPROACH

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Journal of Systems Science & Complexity 2012年第6期25卷 1052-1067页

作者： Hao JIANG Wai-Ki CHING Kiyoko F.AOKI-KINOSHITA dianjing guo Advanced Modeling and Applied Computing Laboratory Department of MathematicsThe University of Hong Kong Department of Bioinformatics Faculty of EngineeringSoka University Department of Biology The Chinese University of Hong Kong

Modeling genetic regulatory networks is an important research topic in genomic research and computationM systems biology. This paper considers the problem of constructing a genetic regula- tory network （GRN） using the discrete dynamic system （DDS） model approach. Although considerable research has been devoted to building GRNs, many of the works did not consider the time-delay effect. Here, the authors propose a time-delay DDS model composed of linear difference equations to represent temporal interactions among significantly expressed genes. The authors also introduce interpolation scheme and re-sampling method for equalizing the non-uniformity of sampling time points. Statistical significance plays an active role in obtaining the optimal interaction matrix of GRNs. The constructed genetic network using linear multiple regression matches with the original data very well. Simulation results are given to demonstrate the effectiveness of the proposed method and model.

关键词： Delay effect discrete dynamic system model genetic regulatory networks k-means clustering method linear multiple regression.

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Comparative Epigenetic Analyses of Acute and Chronic Leukemia

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Journal of Biosciences and Medicines 2015年第6期3卷 29-35页

作者： Yan Zhang dianjing guo School of Life Sciences The Chinese University of Hong Kong Hong Kong China

Comparative analysis of epigenetic alterations between acute vs. chronic leukemia, with an emphasis on histone modifications, was conducted. We focus on the promoter regions of the whole genomes as well as oncogenes. Our results revealed that obvious differential histone modifications pattern exists between the two subtypes. H3K27ac has a high tag density in the promoter region in both Dnd41 cell lines and K562 cell lines. H3K27ac and H3K4me1 have high correlation between the two cell lines of oncogenes. Similar results were also achieved in the promoter region of high expression genes in the Jurkat and K562 cell lines based on RNA-seq data. This suggests that H2K27ac and H3K4me1 are active regulators in leukemia cell lines.

关键词： Leukemia Epigenetics Histone Modification Promoter

Comparative Epigenetics Analyses of Acute and Chronic Leukemia

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Journal of Biosciences and Medicines 2015年第7期3卷 9-16页

作者： Zhang Yan dianjing guo School of Life Sciences and the State Key Laboratory of Agribiotechnolgy The Chinese University of Hong Kong Hong Kong China

Comparative analysis of epigenetic alterations between acute and chronic leukemia, with an emphasis on histone modifications, was conducted. We focused on the promoter regions of the whole genomes as well as oncogenes. Our results revealed that obvious differential histone modifications pattern existed between the two subtypes. H3K27ac had a high tag density in the promoter region in both Dnd41 cell lines and K562 cell lines. H3K27ac and H3K4me1 had high correlation between the two cell lines of oncogenes. Similar results were also achieved in the promoter region of high expression genes in the Jurkat and K562 cell lines based on RNA-seq data. This suggested that H2K27ac and H3K4me1 were active regulators in leukemia cell lines.

关键词： Leukemia Epigenetics Histone Modification Promoter

An Artemisia WD40-Repeat Gene Regulates Multiple Cellular Functions in Arabidopsis

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Journal of Biosciences and Medicines 2016年第5期4卷 30-36页

作者： Wei Wang Qing Zhang dianjing guo State Key Laboratory of Agrobiotechnology and School of Life Sciences The Chinese University of Hong Kong Hong Kong China Current Address: Department of Biology New York University New York USA

In this study, we isolated a WD40-repeat gene from Artemisia annua glandular trichomes. This gene shows 69.97% sequence similarity to Arabidopsis TTG1 at aminoacid level. Sub-cellular localization study shows that AaWD40 protein diffuses in both cell nucleus and cytosol. The correct nuclear localization of AaWD40 was observed when co-expressed with AabHLH, a putative A. thaliana AtTTG1 homologue cloned from Artemisia annua glandular trichomes. When AaWD40 gene was ectopically over expressed in Arabidopsis transparent testa glabrous1-1 (ttg1-1) mutants of A. thaliana, PAs production in seeds was restored, and the trichomeless phenotypes of mutant were rescued. Real-time PCR analysis results revealed that ETC1, CPC, TTG2 and BAN (the downstream targets of AtTTG1 depend on regulatory complex), which regulate the epidermal differentiation and anthocyanin biosynthesis were differentially expressed as a result of AaWD40 over expression. Furthermore, the CLV1, CLV2, CLV3 and WUS, which are required to maintain the stem-cell niche of Arabidopsis shoot apex, were also modulated by AaWD40 and Arabidopsis TTG1. The transcriptions of AP2/ERF, bHLH, MYB, WRKY and NACs family proteins, which are mostly involved in defense, stress response and development regulation, were remarkably modulated by AaWD40 over expression. We hypothesize that WD40 repeat proteins act as a crucial factor in regulating a wide variety of cellular functions in A. thaliana.

关键词： WD40 Repeat Protein Glandular Trichome Arabidopsis

Motif Based Gene Discovery in Plant and Bacteria

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Motif Based Gene Discovery in Plant and Bacteria

Osmotic Stress Response Gene Mining System in Plant Genomes

第十二届全国植物基因组学大会

作者： Yejun Wang,dianjing guo~* School of Life Sciences,The Chinese University of Hong Kong,Hong Kong SAR,China

Well-defined motifs can often be used to identify genes with similar ***,due to the biological complexity,many motifs either contain more than one compositional element,or are too short to be ***,regions adjacent to t... 详细信息

关键词： peroxisomal proteins TypeⅢsecretary proteins Bi-profile Bayesian motif

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Osmotic Stress Response Gene Mining System in Plant Genomes

葡萄子房胚性细胞悬浮系的建立及其生长特性研究

中国遗传学会功能基因组学研讨会

作者： LI Yong, ZHU Yanming, and guo dianjing (Northeast Agricultural University, Harbin, China and The Chinese University of Hong Kong, Shatin, Hong Kong)

Drought, salinity and low temperature are three major environmental factors adversely affect plant productivity. How to improve drought, salinity and extreme temperature resistance of crops is one major research focus of the scientists all over the world. Due to the complexity of osmotic stress response in plants and the lacking of related knowledge about its molecular mechanism, it is rather difficult to develop stress resistant plant through traditional breeding techniques.

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生物技术 1995年第2期5卷 16-18页

作者：郭段京王东凯朱延明东北农业大学园艺系

由葡萄栽培品种“蜜汁”子房诱导的愈伤组织，经不同浓度２，４—Ｄ试验表明，０．５ｍｇ／Ｌ的２，４—Ｄ最有利于形成胚性细胞；该浓度下形成的质地紧密适度的愈伤组织经２个月的悬浮振荡培养，成功地建立了分散性好、生长旺盛的胚性... 详细信息

由葡萄栽培品种“蜜汁”子房诱导的愈伤组织，经不同浓度２，４—Ｄ试验表明，０．５ｍｇ／Ｌ的２，４—Ｄ最有利于形成胚性细胞；该浓度下形成的质地紧密适度的愈伤组织经２个月的悬浮振荡培养，成功地建立了分散性好、生长旺盛的胚性细胞悬浮系；并通过培养过程中生长曲线的测定，确定了细胞悬浮系的生长特性。

关键词：葡萄子房胚性细胞悬浮系

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中空介孔二氧化硅纳米粒子负载的鱼藤酮纳米颗粒在黄瓜植株中的吸收和传导特性

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华南农业大学学报 2022年第1期43卷 85-93页

作者：郭亚军沈殿晶赵明范添乐王智超陈小军扬州市江都区农业技术综合服务中心江苏扬州225200 扬州大学园艺与植物保护学院/农业与农产品安全国际合作联合实验室江苏扬州225009

【目的】以纳米载体作为农药载体,提高农药利用率。【方法】采用自模板合成法,在合成实心介孔二氧化硅纳米粒子(Mesoporous silica nanoparticles,MSNs)的基础上,以水为刻蚀剂制备中空介孔二氧化硅纳米粒子(Hollow mesoporous silica na... 详细信息

【目的】以纳米载体作为农药载体,提高农药利用率。【方法】采用自模板合成法,在合成实心介孔二氧化硅纳米粒子(Mesoporous silica nanoparticles,MSNs)的基础上,以水为刻蚀剂制备中空介孔二氧化硅纳米粒子(Hollow mesoporous silica nanoparticles,HMSNs)。通过溶剂挥发法将植物源农药鱼藤酮(Rot)负载到HMSNs的孔道中,制备得到Rot@HMSNs。测定Rot@HMSNs的缓释性能和杀虫活性。HPLC检测Rot@HMSNs中鱼藤酮在黄瓜植株中的系统分布。【结果】所制备的HMSNs粒径约250 nm,比表面积达999.4 m^(2)/g。Rot@HMSNs粒径均一,载药率达46.7%,具有良好的释放特性,释放模型符合Ritger-Peppas释放模型。HMSNs显著提高了鱼藤酮在黄瓜植株中的吸收和传导能力。【结论】通过纳米载体HMSNs可以提高鱼藤酮的利用率,此研究对于减少农药使用量、降低环境污染具有重要意义。

关键词：中空介孔二氧化硅鱼藤酮纳米颗粒缓释性能吸收传导能力

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现代化草坪草卷生产农艺技术

天津农学院学报 1997年第1期4卷 17-22页

作者：张殿京孙克泰孙国庆郭继霞周之杭高玉葆天津市国营农场管理局天津300074 天津红港绿茵花草公司天津300402 天津南开大学生物系天津300071

我国草坪生产现状受诸多条件制约,至今仍停留在规模小、机械化程度低、栽培技术突破少、建坪速度慢、养护管理差的初级开发阶段,极不适应现代化的绿化要求,目前世界上先进的草皮生产最终商品为草坪草卷（Sod）,利用这种成坪的规格化草... 详细信息

我国草坪生产现状受诸多条件制约,至今仍停留在规模小、机械化程度低、栽培技术突破少、建坪速度慢、养护管理差的初级开发阶段,极不适应现代化的绿化要求,目前世界上先进的草皮生产最终商品为草坪草卷（Sod）,利用这种成坪的规格化草卷直接铺设裸地,简捷便利,且成坪速度较种子直播、分植移栽、植生带等方法快。生产草坪草卷无疑是现代化与专业化的方向,天津农垦系统三年（1994—1996）中积累了草坪草卷的生产技术经验,为社会绿化提供实践借鉴。

关键词：草坪草卷农艺技术成坪

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