International Journal of Bioinformatics Research and Applications最新文献_第8页

Tools, resources and databases for SNPs and indels in sequences: a review. 序列中snp和索引的工具、资源和数据库综述。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.060762

Abhik Seal, Arun Gupta, M Mahalaxmi, Riju Aykkal, Tiratha Raj Singh, Vadivel Arunachalam

引用次数: 16

A joint framework for missing values estimation and biclusters detection in gene expression data. 基因表达数据缺失值估计和双聚类检测的联合框架。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.065243

Kin-On Cheng, Ngai-Fong Law, Yui-Lam Chan, Wan-Chi Siu

引用次数: 2

Drawing inferences from clinical studies with missing values using genetic algorithm. 利用遗传算法从缺失值的临床研究中进行推断。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.065245

R Devi Priya, S Kuppuswami

引用次数: 13

Integrating edge detection and fuzzy connectedness for automated segmentation of anatomical branching structures. 结合边缘检测和模糊连通性的解剖分支结构自动分割。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.058780

Angeliki Skoura, Tatyana Nuzhnaya, Vasileios Megalooikonomou

{"title":"Integrating edge detection and fuzzy connectedness for automated segmentation of anatomical branching structures.","authors":"Angeliki Skoura, Tatyana Nuzhnaya, Vasileios Megalooikonomou","doi":"10.1504/IJBRA.2014.058780","DOIUrl":"https://doi.org/10.1504/IJBRA.2014.058780","url":null,"abstract":"Image segmentation algorithms are critical components of medical image analysis systems. This paper presents a novel and fully automated methodology for segmenting anatomical branching structures in medical images. It is a hybrid approach which integrates the Canny edge detection to obtain a preliminary boundary of the structure and the fuzzy connectedness algorithm to handle efficiently the discontinuities of the returned edge map. To ensure efficient localisation of weak branches, the fuzzy connectedness framework is applied in a sliding window mode and using a voting scheme the optimal connection point is estimated. Finally, the image regions are labelled as tissue or background using a locally adaptive thresholding technique. The proposed methodology is applied and evaluated in segmenting ductal trees visualised in clinical X-ray galactograms and vasculature visualised in angiograms. The experimental results demonstrate the effectiveness of the proposed approach achieving high scores of detection rate and accuracy among state-of-the-art segmentation techniques. ","PeriodicalId":35444,"journal":{"name":"International Journal of Bioinformatics Research and Applications","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1504/IJBRA.2014.058780","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32049674","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: 3

A linearly convergent first-order algorithm for total variation minimisation in image processing. 图像处理中总变差最小化的一阶线性收敛算法。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.058775

Cong D Dang, Kaiyu Dai, Guanghui Lan

引用次数: 2

Fast decision tree-based method to index large DNA-protein sequence databases using hybrid distributed-shared memory programming model. 基于混合分布式共享内存编程模型的快速决策树的大型dna -蛋白质序列数据库索引方法。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.060765

Khalid Mohammad Jaber, Rosni Abdullah, Nur'Aini Abdul Rashid

引用次数: 5

Real-time estimation and detection of non-linearity in bio-signals using wireless brain-computer interface. 基于无线脑机接口的生物信号非线性实时估计与检测。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.059518

S Ganesan, T Aruldoss Albert Victoire, G Vijayalakshmy

引用次数: 1

Perpendicular fibre tracking for neural fibre bundle analysis using diffusion MRI. 应用扩散MRI进行神经纤维束分析的垂直纤维跟踪。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.058779

S Ray, W O'Dell, Angelos Barmpoutis

{"title":"Perpendicular fibre tracking for neural fibre bundle analysis using diffusion MRI.","authors":"S Ray, W O'Dell, Angelos Barmpoutis","doi":"10.1504/IJBRA.2014.058779","DOIUrl":"https://doi.org/10.1504/IJBRA.2014.058779","url":null,"abstract":"Information on the directionality and structure of axonal fibres in neural tissue can be obtained by analysing diffusion-weighted MRI data sets. Several fibre tracking algorithms have been presented in the literature that trace the underlying field of principal orientations of water diffusion, which correspond to the local primary eigenvectors of the diffusion tensor field. However, the majority of the existing techniques ignore the secondary and tertiary orientations of diffusion, which contain significant information on the local patterns of diffusion. In this paper, we introduce the idea of perpendicular fibre tracking and present a novel dynamic programming method that traces surfaces, which are locally perpendicular to the axonal fibres. This is achieved by using a cost function, with geometric and fibre orientation constraints, that is evaluated dynamically for every voxel in the image domain starting from a given seed point. The proposed method is tested using synthetic and real DW-MRI data sets. The results conclusively demonstrate the accuracy and effectiveness of our method. ","PeriodicalId":35444,"journal":{"name":"International Journal of Bioinformatics Research and Applications","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1504/IJBRA.2014.058779","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32049673","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

Functional and structural analysis of mice TRPC6 with human analogue through homology modelling. 通过同源性建模分析小鼠TRPC6与人相似物的功能和结构。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.059536

Soumya Chigurupati, Arnima Bhasin, Krishna Kishore Inampudi, Swapna Asuthkar, Bhanupriya Madarampalli, Ramana Kumar Kammili, Kiran Kumar Velpula

{"title":"Functional and structural analysis of mice TRPC6 with human analogue through homology modelling.","authors":"Soumya Chigurupati, Arnima Bhasin, Krishna Kishore Inampudi, Swapna Asuthkar, Bhanupriya Madarampalli, Ramana Kumar Kammili, Kiran Kumar Velpula","doi":"10.1504/IJBRA.2014.059536","DOIUrl":"https://doi.org/10.1504/IJBRA.2014.059536","url":null,"abstract":"Homology models are increasingly used to determine structural and functional relationships of genes and proteins in biomedical research. In the current study, for the first time, we compared the TRPC6 gene in mouse and human. The protein encoded by this gene forms a receptor activated calcium channel in cell membrane. Defects in this gene have been implicated in a wide range of diseases including glioblastomas. To determine the structural similarities in mouse and human TRPC6, we used standard bioinformatics tools such as fold prediction to identify the protein 3D structure, sequence-structure comparison, and prediction of template and protein structure. We also used glioblastoma cell line U373MG and human glioblastoma tumour tissues to study the expression of TRPC6 in disease conditions to implicate this gene in pathological ailment. Based on the results we conclude that human TRPC6 contains 90% identity and 93% similarity with mouse TRPC6, suggesting that this protein is well conserved in these two species. These isoforms likely demonstrate similar mechanisms in regulating gene expression; thus TRPC6 studies in mice may be extrapolated to humans. ","PeriodicalId":35444,"journal":{"name":"International Journal of Bioinformatics Research and Applications","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1504/IJBRA.2014.059536","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32170679","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

Identification of unique repeated patterns, location of mutation in DNA finger printing using artificial intelligence technique. 利用人工智能技术识别独特的重复模式，定位DNA指纹中的突变。

International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI: 10.1504/IJBRA.2014.059516

B Mukunthan, N Nagaveni

引用次数: 4