Huntington's disease (HD), a rare autosomal dominant disease, affecting the medium spiny neurons of the CNS. Although HD is caused by a trinucleotide repeat in the HTT gene, it is a complex disease. systems Bioinf...
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ISBN:
(纸本)9781728146171
Huntington's disease (HD), a rare autosomal dominant disease, affecting the medium spiny neurons of the CNS. Although HD is caused by a trinucleotide repeat in the HTT gene, it is a complex disease. systemsbioinformatics which combines systems biology and bioinformatics, has the ability to reveal synergistic relationships between multiple entities. This approach is vital as it can shed light on the biological behavior and mechanisms of the cell rather than only trying to study and understand a part of the system. Metabolomics is the systematic study and measurement of metabolites within a biological sample. In this work, we employ two approaches to identify metabolites for HD-related pathways, which were previously identified from our previous work on multi-source data integration These include: i) creation of pathway-to-pathway networks based on the reference network of PathwayConnector where pathways are mapped based on connectivity on KEGG, and (ii) creation of pathway-to-pathway networks using a pairwise approach, where a connection between two pathways exists only if they share common metabolites.
A phylogenetic tree represents the evolutionary history of a group of organisms. In this work, we introduce a novel interactive tool for constructing phylogenetic trees, Phylogenetic Tree Construction package. The pac...
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ISBN:
(纸本)0769520006
A phylogenetic tree represents the evolutionary history of a group of organisms. In this work, we introduce a novel interactive tool for constructing phylogenetic trees, Phylogenetic Tree Construction package. The package supports four well-known algorithms, Unweighted Pair Group Method using Arithmetic average, Neighbor Joining, Fitch Margoliash, and Maximum Parsimony.
Advances in biotechnology have given rise to rapid production of biomedical data and the creation of a wide variety of biomedical and bioinformatics ontologies which serve as a primary impetus for the creation of new ...
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ISBN:
(纸本)9781424469208
Advances in biotechnology have given rise to rapid production of biomedical data and the creation of a wide variety of biomedical and bioinformatics ontologies which serve as a primary impetus for the creation of new ontological similarity measures. A new IC ontological similarity measure, a variation of a standard fuzzy set similarity measure, is presented. This new IC ontological similarity measure has never been used in bioinformatics studies. It is compared with two standard IC ontological similarity measures, Resnik and Lin, and also an existing modification of Lin's measure by analyzing the results when used on a set of concepts pairs selected from the cellular component sub-ontology of the Gene Ontology. As part of this experiment, several different methods of calculating IC for an ontological concept are also investigated. These results for the cellular component sub-ontology confirm the results of a previous study on WordNet showing that ontology-based IC measures corresponded closely with corpus-based IC measures.
The eight papers included in this special section were presented at the 12th International conference on Intelligent Computing (ICIC) held at Lanzhou, China, during August 2-5, 2016. ICIC was formed to provide an annu...
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The eight papers included in this special section were presented at the 12th International conference on Intelligent Computing (ICIC) held at Lanzhou, China, during August 2-5, 2016. ICIC was formed to provide an annual forum dedicated to the emerging and challenging topics in artificial intelligence, machine learning, bioinformatics, and computational biology, etc. It aims to bring together researchers and practitioners from both academia and industry to share ideas, problems, and solutions related to the multifaceted aspects of intelligent computing.
The papers in this special section were presented at the 11th International conference on Intelligent Computing ICIC held in Fuzhou, China, on August 20-23, 2015. This conference was formed to provide an annual forum ...
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The papers in this special section were presented at the 11th International conference on Intelligent Computing ICIC held in Fuzhou, China, on August 20-23, 2015. This conference was formed to provide an annual forum dedicated to the emerging and challenging topics in artificial intelligence, machine learning, bioinformatics, etc. It aims to bring together researchers and practitioners from both academia and industry to share ideas, problems, and solutions related to the multifaceted aspects of intelligent computing.
Information Fusion (IF) is about combining, or fusing, information from different sources in order to facilitate our understanding of a complex system and thereby provide insights that could not be gained from any of ...
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Gene regulation at the cellular level is a dynamic process;and neural networks with the capability of being trained and regulated based on training data, and fuzzy systems with their interpretability, are suitable alg...
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ISBN:
(纸本)9781479969265
Gene regulation at the cellular level is a dynamic process;and neural networks with the capability of being trained and regulated based on training data, and fuzzy systems with their interpretability, are suitable algorithms for this type of computations. In this research, methods based on neuro-fuzzy networks were employed for predicting the complicated relationships that exist among genes. In the proposed method, genes that have the greatest effect on each other are found and considered as regulatory genes. Then the types of their relationships including those with inhibitory, activating, and neutralizing effects are determined, and the gene regulatory network is mapped. The standard microarray dataset related to 12 typical genes that influence the germination cycle of the yeast species Saccharomyces cerevisiae was used for training. Obtained results were validated using previous biological laboratory results. It was found that the proposed method reduced the number of extracted rules for input-output space fragmentation by 15%, which substantially reduced the required computations, while the sum square error of the algorithm declined by -0.3 compared to the method that resembled the proposed algorithm the most.
Cutting-edge sequencing systems produce data at a prodigious rate;and the analysis of these datasets requires significant computing resources. Cloud computing provides a tantalizing possibility for on-demand access to...
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ISBN:
(纸本)9781424450114
Cutting-edge sequencing systems produce data at a prodigious rate;and the analysis of these datasets requires significant computing resources. Cloud computing provides a tantalizing possibility for on-demand access to computing resources. However, many open questions remain. We present here a performance assessment of BLAST on real metagenomics data in a cloud setting, in order to determine the viability of this approach. BLAST is one of the premier applications in bioinformatics and computational biology and is assumed to consume the vast majority of resources in that area.
In this paper, to integrate android systems, intelligent computing and web service on an intelligent mobile web service computing systems for bioinformatics is proposed. That is, users can send parameters to control t...
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ISBN:
(纸本)9781467372459
In this paper, to integrate android systems, intelligent computing and web service on an intelligent mobile web service computing systems for bioinformatics is proposed. That is, users can send parameters to control the intelligent computing system under Matlab/C#/Java and query from client-side to server-side in the proposed bioinformaticssystems with their android phone. Besides, the proposed system can also deal with disease genes search under web service with bioinformatics web. At the same time, web service is important communication protocol in the proposed systems. Consequently, the proposed systems can provide that user can modify parameters for controlling the proposed intelligent computing, deal with disease genes search under web service with bioinformatics web and obtain results from the proposed systems by android phone arbitrarily.
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