Multivariate Analyses of Codon Usage Biases Book

Multivariate Analyses of Codon Usage Biases

  • Author : Jean R. Lobry
  • Publisher : Elsevier
  • Release Date : 2018-11-20
  • Genre: Computers
  • Pages : 168
  • ISBN 10 : 9780128172513

Multivariate Analyses of Codon Usage Biases Excerpt :

A complete case study with all coding sequences from the bacteria Borrellia burgdorferi illustrates how multivariate analyses reveals evolutionary mechanisms acting at the molecular level. They are either mutationnal (symmetric and asymmetric directionnal mutation pressure) or selective (selection against head-on collisions or linked to gene expressivity or subcellular location). The main objective is to provide a complete and reproducible example of the power of multivariate analyses in this application field

Proceedings of the 4th Asia Pacific Bioinformatics Conference Book

Proceedings of the 4th Asia Pacific Bioinformatics Conference

  • Author : Tao Jiang
  • Publisher : World Scientific
  • Release Date : 2005-12-13
  • Genre: Computers
  • Pages : 380
  • ISBN 10 : 9781783260034

Proceedings of the 4th Asia Pacific Bioinformatics Conference Excerpt :

High-throughput sequencing and functional genomics technologies have given us a draft human genome sequence and have enabled large-scale genotyping and gene expression profiling of human populations. Databases containing large numbers of sequences, polymorphisms, and gene expression profiles of normal and diseased tissues in different clinical states are rapidly being generated for human and model organisms. Bioinformatics is thus rapidly growing in importance in the annotation of genomic sequences, in the understanding of the interplay between genes and proteins, in the analysis of the genetic variability of species, and so on. This proceedings contains an up-to-date exchange of knowledge, ideas, and solutions to conceptual and practical issues of bioinformatics, by researchers, professionals, and industrial practitioners at the 4th Asia-Pacific Bioinformatics Conference held in Taipei in February 2006. Contents:Accuracy of Four Heuristics for the Full Sibship Reconstruction Problem in the Presence of Genotype Errors (D A Konovalov)Predicting Ranked SCOP Domains by Mining Asociations of Visual Contents in Distance Matrices (P-H Chi & C-R Shyu)An Efficient Algorithm for String Motif Discovery (F Y L Chin & H C M Leung)On the Complexity of Finding Control Strategies for Boolean Networks (T Akutsu et al.)Microarray Missing Value Imputation by Iterated Local Least Squares (Z Cai et al.)Techniques for Assessing Phylogenetic Branch Support: A Performance Study (D Ruths & L Nakhleh)Identification of Over-Represented Combinations of Transcription Factor Binding Sites in Sets of Co-Expressed Genes (S-S Huang et al.)A Knowledge-Based Approach to Protein Local Structure Prediction (C-T Chen et al.)Resolving the Gene Tree and Species Tree Problem by Phylogenetic Mining (X Han)Gene Expression Data Clustering Based on Local Similarity Combination (D Pan & F Wang)and other papers Readership: Academics, researchers, graduate students in bioinformatics and computer science. Keyword

C  Elegans II Book

C Elegans II

  • Author : Donald L. Riddle
  • Publisher : Firefly Books
  • Release Date : 1997
  • Genre: Science
  • Pages : 1222
  • ISBN 10 : 0879695323

C Elegans II Excerpt :

Defines the current status of research in the genetics, anatomy, and development of the nematode C. elegans, providing a detailed molecular explanation of how development is regulated and how the nervous system specifies varied aspects of behavior. Contains sections on the genome, development, neural networks and behavior, and life history and evolution. Appendices offer genetic nomenclature, a list of laboratory strain and allele designations, skeleton genetic maps, a list of characterized genes, a table of neurotransmitter assignments for specific neurons, and information on codon usage. Includes bandw photos. For researchers in worm studies, as well as the wider community of researchers in cell and molecular biology. Annotation copyrighted by Book News, Inc., Portland, OR

Information Technology and Agricultural Engineering Book

Information Technology and Agricultural Engineering

  • Author : Egui Zhu
  • Publisher : Springer Science & Business Media
  • Release Date : 2012-02-02
  • Genre: Technology & Engineering
  • Pages : 994
  • ISBN 10 : 9783642275371

Information Technology and Agricultural Engineering Excerpt :

This volume comprises the papers from 2011 International Conference on Information Technology and Agricultural Engineering (ICITAE 2011). 2011 International Conference on Information Technology and Agricultural Engineering (ICITAE 2011) has been held in Sanya, China, December 1-2, 2011. All the papers have been peer reviewed by the selected experts. These papers represent the latest development in the field of materials manufacturing technology, spanning from the fundamentals to new technologies and applications. Specially, these papers cover the topics of Information Technology and Agricultural Engineering. This book provides a greatly valuable reference for researchers in the field of Information Technology and Agricultural Engineering who wish to further understand the underlying mechanisms and create innovative and practical techniques, systems and processes. It should also be particularly useful for engineers in information technology and agriculture who are responsible for the efficient and effective operations.

The COVID 19 Pandemic  Epidemiology  Molecular Biology and Therapy Book

The COVID 19 Pandemic Epidemiology Molecular Biology and Therapy

  • Author : Shama Parveen
  • Publisher : Bentham Science Publishers
  • Release Date : 2021-02-01
  • Genre: Medical
  • Pages : 276
  • ISBN 10 : 9789811481857

The COVID 19 Pandemic Epidemiology Molecular Biology and Therapy Excerpt :

The Coronavirus Disease 2019 (COVID-19) pandemic has affected almost every part of the globe with millions of cases and over a million deaths. The pandemic has had a significant global economic impact and addressing it systematically requires significant efforts from researchers, healthcare workers and governments. The COVID-19 Pandemic covers relevant aspects of this viral pandemic including information about the SARS-CoV-2 pathogen (morphology, genome, proteins, structural protein genes, replication), global epidemiology, transmission, risk factors, clinical manifestation, management, host immune response, pathogenesis, diagnosis and therapeutic agents (antivirals, natural compounds and vaccines). Readers will find basic and advanced knowledge about the disease organized into simple and easy-to-read chapters about the disease, making this book a handy and comprehensive reference for general readers, academics and biology students, alike.

Codon Evolution Book

Codon Evolution

  • Author : Gina M. Cannarozzi
  • Publisher : Oxford University Press
  • Release Date : 2012-02-23
  • Genre: Mathematics
  • Pages : 280
  • ISBN 10 : 9780199601165

Codon Evolution Excerpt :

The second part of the book focuses on codon usage bias.

Evolutionary Biology  Exobiology and Evolutionary Mechanisms Book

Evolutionary Biology Exobiology and Evolutionary Mechanisms

  • Author : Pierre Pontarotti
  • Publisher : Springer Science & Business Media
  • Release Date : 2013-07-03
  • Genre: Science
  • Pages : 300
  • ISBN 10 : 9783642382123

Evolutionary Biology Exobiology and Evolutionary Mechanisms Excerpt :

This book presents 19 selected contributions to the 16th Evolutionary Biology Meeting, which took place in September 2012 in Marseilles. The aims of these annual meetings, which gather together leading evolutionary biologists and other scientists, are to promote the exchange of ideas and to encourage interdisciplinary collaborations. The first chapter deals with the history of a great discovery: The first experiments on ascidian and sea urchin egg fertilization. The remaining contributions are grouped under the following categories: · Evolutionary biology concepts · Exobiology and the origin of life · Evolutionary mechanisms Offering an up-to-date overview of recent findings in the field of evolutionary biology, this book is an invaluable source of information for scientists, teachers and advanced students.

Investigation and Quantification of Codon Usage Bias Trends in Prokaryotes Book

Investigation and Quantification of Codon Usage Bias Trends in Prokaryotes

  • Author : Amanda L. Hanes
  • Publisher : Unknown
  • Release Date : 2009
  • Genre: Nucleotides
  • Pages : 106
  • ISBN 10 : OCLC:1005139559

Investigation and Quantification of Codon Usage Bias Trends in Prokaryotes Excerpt :

Organisms construct proteins out of individual amino acids using instructions encoded in the nucleotide sequence of a DNA molecule. The genetic code associates combinations of three nucleotides, called codons, with every amino acid. Most amino acids are associated with multiple synonymous codons, but although they result in the same amino acid and thus have no effect on the final protein, synonymous codons are not present in equal amounts in the genomes of most organisms. This phenomenon is known as codon usage bias, and the literature has shown that all organisms display a unique pattern of codon usage. Research also suggests that organisms with similar codon usage share biological similarities as well. This thesis helps to verify this theory by using an existing computational algorithm along with multivariate analysis to demonstrate that there is a significant difference between the codon usage of free-living prokaryotes and that of obligate intracellular prokaryotes. The observed difference is primarily the result of GC content, with the additional effect of an unknown factor. Although the existing literature often mentions the strength of biased codon usage, it does not contain a clear, consistent definition of the concept. This thesis provides a disambiguated definition of bias strength and clarifies the relationships between this and other properties of biased codon usage. A bias strength metric, designed to match the given definition of bias strength, is proposed. Evaluation of this metric demonstrates that it compares favorably with existing metrics used in the literature as criteria for bias strength, and also suggests that codon usage bias in general follows the trend of being either strong and global to the genome, or weak and present in only a subset of the genome. Analysis of these metrics provides insight into the unknown factor partially responsible for the codon usage difference between free-living and obligatorily intracellular prokaryotes, and the

Probe Book


  • Author : Anonim
  • Publisher : Unknown
  • Release Date : 1991
  • Genre: Gene mapping
  • Pages : null
  • ISBN 10 : CORNELL:31924073271714

Probe Excerpt :

Pattern Recognition in Bioinformatics Book

Pattern Recognition in Bioinformatics

  • Author : Visakan Kadirkamanathan
  • Publisher : Springer Science & Business Media
  • Release Date : 2009-08-28
  • Genre: Computers
  • Pages : 452
  • ISBN 10 : 9783642040306

Pattern Recognition in Bioinformatics Excerpt :

This book constitutes the refereed proceedings of the Fourth International Workshop on Pattern Recognition in Bioinformatics, PRIB 2009, held in Sheffield, UK, in September 2009. The 38 revised full papers presented were carefully reviewed and selected from numerous submissions. The topics covered by these papers range from image analysis for biomedical data to systems biology. The conference aims at crating a focus for the development and application of pattern recognition techniques in the biological domain.

An Atlas of Drosophila Genes Book

An Atlas of Drosophila Genes

  • Author : Gustavo Maroni
  • Publisher : Oxford University Press
  • Release Date : 1993-06-24
  • Genre: Science
  • Pages : 432
  • ISBN 10 : 0198023529

An Atlas of Drosophila Genes Excerpt :

Drosophila, the common fruit fly, is the most extensively studied of all organisms from the standpoint of genetics and cytology. This atlas summarizes what is known about the approximately 100 Drosophila genes for which the complete nucleotide sequence is known. Each entry includes a description of the gene's molecular organization and expression, the complete nucleotide and amino acid sequences, maps of interesting structures, highlights of functional features and promoter regulatory regions, and selected references to the primary literature. A separate section of the atlas considers different aspects of gene organization as they occur in the Drosophila genome. Topics covered include size correlations among various genetic elements, splicing signals, translation initiation signals, and codon bias. The work represents a new milestone in summarizing current information and making it easily accessible to geneticists and biologists.

Maize Book


  • Author : Y. P. S. Bajaj
  • Publisher : Springer Science & Business Media
  • Release Date : 2012-12-06
  • Genre: Technology & Engineering
  • Pages : 632
  • ISBN 10 : 9783642579684

Maize Excerpt :

Forty chapters deal with various aspects of tissue culture, in vitro manipulation, and other biotechnological approaches to the improvement of maize. They are arranged in eight sections: - In Vitro Technology, Callus Cultures and Regeneration of Plants, Somatic Embryogenesis. - Wide Hybridization, Embryo, Ovule, and Inflorescence Culture, in Vitro Fertilization. - Production of Haploids and Double Haploids, Anther and Pollen Culture. - Protoplast Culture, Genetic Transformation. - Somaclonal Variation and Mutations. - Molecular Biology and Physiological Studies. - Proteins and Nutritional Improvement. Pollen Storage, Cryopreservation of Germplasm.

Computational Methods in Systems Biology Book

Computational Methods in Systems Biology

  • Author : Vincent Danos
  • Publisher : Springer
  • Release Date : 2005-04-01
  • Genre: Computers
  • Pages : 282
  • ISBN 10 : 9783540259749

Computational Methods in Systems Biology Excerpt :

The Computational Methods in Systems Biology (CMSB) workshop series was established in 2003 by Corrado Priami. The purpose of the workshop series is to help catalyze the convergence between computer scientists interested in language design, concurrency theory, software engineering or program verification, and physicists, mathematicians and biologists interested in the systems-level understanding of cellular processes. Systems biology was perceived as being increasingly in search of sophisticated modeling frameworks whether for representing and processing syst- level dynamics or for model analysis, comparison and refinement. One has here a clear-cut case of a must-explore field of application for the formal methods developed in computer science in the last decade. This proceedings consists of papers from the CMSB 2003 workshop. A good third of the 24 papers published here have a distinct formal methods origin; we take this as a confirmation that a synergy is building that will help solidify CMSB as a forum for cross-community exchange, thereby opening new theoretical avenues and making the field less of a potential application and more of a real one. Publication in Springer's new Lecture Notes in Bioinformatics (LNBI) offers particular visibility and impact, which we gratefully acknowledge. Our keynote speakers, Alfonso Valencia and Trey Ideker, gave challenging and somewhat humbling lectures: they made it clear that strong applications to systems biology are still some way ahead. We thank them all the more for accepting the invitation to speak and for the clarity and excitement they brought to the conference.