2008 2nd International Conference on Bioinformatics and Biomedical Engineering最新文献_第3页

Classification and Identification of Differential Gene Expression for Microarray Data: Improvement of the Random Forest Method 微阵列数据中差异基因表达的分类与鉴定:随机森林方法的改进

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.186

Xiao-yan Wu, Zhenyu Wu, Kang Li

{"title":"Classification and Identification of Differential Gene Expression for Microarray Data: Improvement of the Random Forest Method","authors":"Xiao-yan Wu, Zhenyu Wu, Kang Li","doi":"10.1109/ICBBE.2008.186","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.186","url":null,"abstract":"Classification and gene selection of microarray data have been important aspects of the investigation of gene expression data in biomedical researches. The analysis of gene expression data presents a new challenge for statistical methods because of its high dimensionality. Random forest has been used to deal with the problem. We present a new classifier named Recursive Random Forest which selects genes automatically and improves the accuracy of classification based on random forest. Three microarray datasets (ALL-AML Leukemia data, Colon Cancer data and Prostate cancer data) were analyzed using Recursive Random Forest. Although the genes selected from the microarray data were only a few, they were effective on cancer prediction and their biological functions have been confirmed. Especially on the ALL-AML Leukemia data, it achieved a perfect accuracy on the test set using only three genes (selected from over 7000). We also research the properties of random forest and recursive random forest on simulated experiments. Recursive random forest provides more useful information than simply using random forest for the further biological experiment, clinical diagnoses and disease therapies because of its function of gene selection, which would probably become an excellent 'tool' on sample classification and gene selection for microarray data. Source code written in R for Recursive Random Forest is available from http://vxzv.hrbmu.edu.cn/gongwei/biostatistics/.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"7 1","pages":"763-766"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74823297","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

An Edge Detection Method for Chromosome Images 染色体图像的边缘检测方法

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.930

Yan Wenzhong, Shen Shuqun

引用次数: 6

Amelioration of Salt Stress on Annual Ryegrass by ACC Deaminase-Containing Plant Growth-Promoting Rhizobacteria 含ACC脱氨酶植物促生根杆菌改善一年生黑麦草盐胁迫

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.527

Yun-xiu Ji, Xiao-dong Huang

{"title":"Amelioration of Salt Stress on Annual Ryegrass by ACC Deaminase-Containing Plant Growth-Promoting Rhizobacteria","authors":"Yun-xiu Ji, Xiao-dong Huang","doi":"10.1109/ICBBE.2008.527","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.527","url":null,"abstract":"Four strains of plant growth-promoting rhizobacteria (PGPR) were isolated from the rhizosphere of salty plants, based on the ability to utilize the compound 1-aminocyclopropane-1-carboxylic acid (ACC) as a sole nitrogen source. These four bacterial isolates, especially Pseudomonas sp. S1, alleviated greatly salt stress and promoted significantly the seedling growth of annual ryegrass under either 5 or 10 g/kg NaCl stress in gnotobiotic growth pouch assay. Compared with control (no NaCl), more plant promotion was observed under 10 g/kg NaCl stress. The greatly significant positive correlations between ACC deaminase activity of four bacterial isolates and plant growth parameters (root length and shoot length) were observed. Results of soil pot trial also revealed that inoculation with Pseudomonas sp. S1 significantly increased the root dry weight and shoot dry weight of annual ryegrass under 5 g/kg NaCl stress over 50 days. The results may imply that inoculation with ACC deaminase-containing PGPR may serve as an environmentally-friendly and economical alternative to the amelioration of increasingly saline soils.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"30 1","pages":"4104-4107"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78811544","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 4

Effect of Montmorillonite on Diffusion of Creatinine Between Blood Vessel and Intestine 蒙脱石对肌酐在血管和肠间扩散的影响

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.637

Li-hui Long, Zhao Ma, Yongxiao Cao, Jing Liu, Ting Zhai

{"title":"Effect of Montmorillonite on Diffusion of Creatinine Between Blood Vessel and Intestine","authors":"Li-hui Long, Zhao Ma, Yongxiao Cao, Jing Liu, Ting Zhai","doi":"10.1109/ICBBE.2008.637","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.637","url":null,"abstract":"To study the effect of montmorillonite promoting diffuse of creatinine from blood vessel to intestine and preventing absorption of creatinine in intestinal perfusate. Methods The intestine tract and blood vessel of rats were perfused circularly with intestinal perfusate or blood vessel perfusate containing creatinine 80 mg/L, respectively. The concentration of creatinine was determined by basic picric acid method. Results When the blood vessel and intestinal tract were perfused circularly by vascular perfusate containing creatinine and intestine perfusate without creatinine, respectively, the concentration of creatinine in vascular perfusate decreased little by little, and the concentration of creatinine in intestine perfusate increased slowly. The concentration of creatinine of intestine and blood vessel perfusate was decreased in montmorillonite of 1.0 g/kg and 0.5 g/kg groups compared with control (P<0.01). The blood vessel and intestinal tract were perfused circularly by vascular perfusate without creatinine and intestine perfusate with creatinine, respectively, the concentration of creatinine in intestine perfusate decreased little by little, and the concentration of creatinine in vascular perfusate increased slowly. When montmorillonite was administrated into the intestinal tract, the concentration of creatinine in intestine and blood vessel perfusate of montmorillonite of 1.0 g/kg and 0.5 g/kg group was decreased obviously (P<0.01). Conclusion Creatinine can diffuse from blood vessel to intestine and is reabsorbed in intestine. Montmorillonite can promote the diffuse of creatinine to intestine tract and can decrease absorption of creatinine in intestinal tract.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"160 1","pages":"1237-1240"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75933671","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Pathological Assessment of Vocal Fold Nodules and Polyp via Fractal Dimension of Patients' Voices 用声音分形维数对声带小结和息肉的病理评价

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.840

G. Vaziri, F. AImasganj

引用次数: 4

Adsorption of Phenol from Aqueous Solution by Hydroxyapatite Nanopowders. Part I: Synthesis and Factors Affecting the Adsorption Characteristic Studies 羟基磷灰石纳米粉体对水溶液中苯酚的吸附。第一部分:吸附特性的合成及影响因素的研究

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.390

K. Lin, Jiayong Pan, Yiwei Chen, Rongming Cheng, Xuecheng Xu

{"title":"Adsorption of Phenol from Aqueous Solution by Hydroxyapatite Nanopowders. Part I: Synthesis and Factors Affecting the Adsorption Characteristic Studies","authors":"K. Lin, Jiayong Pan, Yiwei Chen, Rongming Cheng, Xuecheng Xu","doi":"10.1109/ICBBE.2008.390","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.390","url":null,"abstract":"In this study, the nano-hydroxyapatite (n-HAp) powders prepared by chemical precipitation method were used as the adsorbent, and the potential of n-HAp powders for the removal of phenol from aqueous solution was studied. The effect of contact time, initial phenol concentration, pH, adsorbent dosage, solution temperature and adsorbent calcining temperature on the phenol adsorption was investigated. The results showed that the n-HAp powders possessed good adsorption ability to phenol. The adsorption process was fast, and it reached equilibrium in 2 h of contact. The initial phenol concentration, pH and the adsorbent calcining temperature played obvious effects on the phenol adsorption capacity onto n-HAp powders. Increase of the initial phenol concentration could effectively increase the phenol adsorption capacity. At the same time, increase of the pH to high-acidity or to high-alkalinity also resulted in the increase of the phenol adsorption capacity. Increase of the n-HAp dosage could effectively increase the phenol sorption percent. However, the higher calcining temperature of n-HAp powders could obviously decrease the adsorption capacity. The maximum phenol sorption capacity was obtained as 10.33 mg/g for 400 mg/L initial phenol concentrations at pH 6.4 and 60degC.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"408 1","pages":"3549-3552"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77748837","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Treatment of Polluted River Water Using Biofilm Pretreatment and Sequencing Aerated Vertical Subsurface Flow Constructed Wetland 生物膜预处理与顺序曝气垂直潜流人工湿地处理污染河水

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.1081

Lei Wang, Bei Wu

{"title":"Treatment of Polluted River Water Using Biofilm Pretreatment and Sequencing Aerated Vertical Subsurface Flow Constructed Wetland","authors":"Lei Wang, Bei Wu","doi":"10.1109/ICBBE.2008.1081","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.1081","url":null,"abstract":"Polluted river water was the main source of the pollutants which import to the lake of Dianchi in China. A new treatment consisted of a low dissolved oxygen biofilm pretreatment and a sequencing aerated vertical subsurface flow constructed wetland was tested to treat the wastewater. Two other constructed wetland reactors were installed to compare and evaluate the efficiency of different aerated system and nitrification. The average removal rates of SS and COD in pretreatment were 88.7% and 58.6% when the DO in the reactor was between 0.2-1.5 mg/L, and the treatment performance was stably in different season. In the vertical subsurface flow constructed wetlands, loading rates of NH3-N would reach up to 15 g/m2-d under the air/water ratio of 1:1 in sequencing aerated mode and which was more effective for DO increasing than the continuous aerated mode. TN removal efficiency was related by both nitrification and denitrification and the highest removal rate was 40.6%. The results showed that the use of biofilm pretreatment and sequencing aerated system reduced the risk of clogging and improved the nitrification significantly.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"80 1","pages":"2997-3000"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78027472","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Resilience Classification Research of Water Resources System in a Changing Environment 变化环境下水资源系统恢复力分类研究

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.437

Yu Cuisong, Hao Zhen-chun

{"title":"Resilience Classification Research of Water Resources System in a Changing Environment","authors":"Yu Cuisong, Hao Zhen-chun","doi":"10.1109/ICBBE.2008.437","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.437","url":null,"abstract":"Resilience is defined as the ability of system returning to its original condition after certain disturbance. The Water Resources System's Resilience (WRSR) is affected by the internal elements within the system and outside stresses influence. This concept is proposed on the base of previous research on resilience research of other fields. A resilience index assessment system is established based on analysis of inter and outer influencing factors of WRSR. The mean squared deviation method is adopted to calculate different index weight. A fuzzy clustering method is used to evaluate the classification of WRSR. The example operates evaluation classification towards eleven districts of Shanxi province in 1994, 1999, and 2004 in a changing environment. The WRSK of Shanxi province is divided into three grades. The three grades are strong resilience area, common resilience area and feeble resilience area respectively. The results demonstrate that the WRSR in Shanxi province is generally low. 72.7% of the area belongs to feeble area of WRSR. 18.2% of Shanxi province belong to common area and strong area in 2004 respectively. Besides, WRSR spatially decreases from east to west and from south to north, while temporally descending in most area. At the same time the resilience change values of water resources system in a changing environment show that the resilience of water resource appear descending trend year by year in Shanxi province. Eight districts of eleven districts appear descending trend year by year, occupying 72.73% of all districts in Shanxi province. The strong areas decrease from five districts in 1994 year to one district in 2004 year. The feeble areas increase from one district in 1994 year to eight districts in 2004 year. The conclusions agree with the distribution of annual precipitation in Shanxi province.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"190 1","pages":"3741-3744"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79758734","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Needle Insertion Simulation for Image-Guided Brachytherapy of Prostate Cancer 影像引导前列腺癌近距离放射治疗的针刺模拟

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.749

Shan Jiang, N. Hata, R. Kikinis

{"title":"Needle Insertion Simulation for Image-Guided Brachytherapy of Prostate Cancer","authors":"Shan Jiang, N. Hata, R. Kikinis","doi":"10.1109/ICBBE.2008.749","DOIUrl":"https://doi.org/10.1109/ICBBE.2008.749","url":null,"abstract":"Brachytherapy is an effective treatment for prostate cancer. Preciously implant of seeds with planned radioactive dose irradiate surrounding tissue over several months will minimize healthy tissue damage while maximize the destruction of cancerous cells. However, force load on the tip of insertion needle will cause the tissue deformation during the process and result in the misplaced seeds. This will lead to underdosed regions and complications, such as impotence or urinary incontinence. Apparently, improved implant accuracy can improve the local control and can improve global control of the disease and also reduce global toxicity. In this paper, a 3D model of needle insertion soft tissue based on large deformation non linear dynamic FEM (Finite Element Method) numerical algorithm combined with Mooney-Rivlin material model is described. Mechanical behavior of the non-linear material property can be simulated as well as the interaction between needle and soft tissue. Therefore, implant error can be calculated with the seeds implant position and planned seeds location. In this research, this model is used to test the sensitivity of seed placement error with insertion point, needle orientation, and insertion distance. As results shown, the shorter distance between the insertion point and target location, the smaller placement error occurred This method can be used as complementarities instruction for robot assistant prostate brachytherapy without template.","PeriodicalId":6399,"journal":{"name":"2008 2nd International Conference on Bioinformatics and Biomedical Engineering","volume":"2 1","pages":"1682-1685"},"PeriodicalIF":0.0,"publicationDate":"2008-05-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"80245169","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 15

Air Stripping of High Concentration Ammonia Wastewater in Fertilizer Plant 化肥厂高浓度氨废水的气提

2008 2nd International Conference on Bioinformatics and Biomedical Engineering Pub Date : 2008-05-16 DOI: 10.1109/ICBBE.2008.1059

J.-m. Li, Yupei Du, Zhiying Dong, X.-l. Zhao

引用次数: 0