A Computational Study Of The Role Of Conserved Domains In Protein Interactions Microform
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A Computational Study Of The Role Of Conserved Domains In Protein Interactions Microform
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Author : Doron Betel
language : en
Publisher: Library and Archives Canada = Bibliothèque et Archives Canada
Release Date : 2005
A Computational Study Of The Role Of Conserved Domains In Protein Interactions Microform written by Doron Betel and has been published by Library and Archives Canada = Bibliothèque et Archives Canada this book supported file pdf, txt, epub, kindle and other format this book has been release on 2005 with categories.
Complex organisms that are capable of inter-cellular communication and occupy various ecological niches are believed to evolve through the generation of novel cellular pathways. The myriad of processes in a cell are facilitated by proteins that form the building blocks of complex pathways through a set of carefully orchestrated interactions between functionally conserved regions in the proteins. The central notion that underlies this work is that these conserved elements of the proteins (domains) are the basic units of interaction. The objective of this thesis is to explore the role of domains in determining the interactions between proteins. The thesis outlines the necessary computational infrastructure for domain annotation and a number of computational methods that investigate the role of domains in protein interactions from visual, large-scale and individual perspectives. The first of these methods is a graphical program for the depiction of domains in a set of interacting proteins. This provides a visual tool to classify proteins and identify common elements. In the second study, protein complexes are used to identify domain pairs that co-occur in concert in a statistically significant manner. These domain co-occurrences are used to generate a network of domain correlations that represent functional networks in contrast to protein interaction networks. Such networks provide insight into new functional relationships between domains that are otherwise non-obvious and represent a first approximation of domain-domain interactions. Domain correlations are also used to analyze and compare datasets of protein complexes that are either curated or generated via high-throughput experiments. In the final study, the binding specificity of domains is inferred from a combination of protein structure complexes and other experimental interactions. The binding motifs are extracted from 3D structures with interacting domains and converted to a more informative PSSM representation by the use of the Gibbs sampling algorithm. The resulting domain binding-profiles are used to predict novel interactions for a number of proteins as well as to predict interactions within protein complexes.
Computational Analysis Of Protein Domain Interactions
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Author : Stephen John Littler
language : en
Publisher:
Release Date : 2006
Computational Analysis Of Protein Domain Interactions written by Stephen John Littler and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006 with categories.
Bioinformatics Technologies
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Author : Yi-Ping Phoebe Chen
language : en
Publisher: Springer Science & Business Media
Release Date : 2005-01-18
Bioinformatics Technologies written by Yi-Ping Phoebe Chen and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2005-01-18 with Computers categories.
Introductio to bioinformatics. Overview of structural bioinformatics. Database warehousing in bioinformatics. Modeling for bioinformatics. Pattern matching for motifs. Visualization and fractal analysis of biological sequences. Microarray data analysis.
Bioinformatics And Systems Biology
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Author : Frederick Marcus
language : en
Publisher: Springer Science & Business Media
Release Date : 2008-07-22
Bioinformatics And Systems Biology written by Frederick Marcus and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-07-22 with Science categories.
Collaborative research in bioinformatics and systems biology is a key element of modern biology and health research. This book highlights and provides access to many of the methods, environments, results and resources involved, including integral laboratory data generation and experimentation and clinical activities. Collaborative projects embody a research paradigm that connects many of the top scientists, institutions, their resources and research worldwide, resulting in first-class contributions to bioinformatics and systems biology. Central themes include describing processes and results in collaborative research projects using computational biology and providing a guide for researchers to access them. The book is also a practical guide on how science is managed. It shows how collaborative researchers are putting results together in a way accessible to the entire biomedical community.
Restriction Endonucleases
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Author : Alfred Pingoud
language : en
Publisher: Springer Science & Business Media
Release Date : 2012-12-06
Restriction Endonucleases written by Alfred Pingoud and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012-12-06 with Science categories.
Restriction enzymes are highly specific nucleases which occur ubiquitously among prokaryotic organisms, where they serve to protect bacterial cells against foreign DNA. Many different types of restriction enzymes are known, among them multi-subunit enzymes which depend on ATP or GTP hydrolysis for target site location. The best known representatives, the orthodox type II restriction endonucleases, are homodimers which recognize palindromic sequences, 4 to 8 base pairs in length, and cleave the DNA within or immediately adjacent to the recognition site. In addition to their important biological role (up to 10 % of the genomes of prokaryotic organisms code for restriction/modification systems!), they are among the most important enzymes used for the analysis and recombination of DNA. In addition, they are model systems for the study of protein-nucleic acids interactions and, because of their ubiquitous occurence, also for the understanding of the mechanisms of evolution.
Non Protein Coding Rnas
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Author : Nils Walter
language : en
Publisher: Springer Science & Business Media
Release Date : 2008-11-18
Non Protein Coding Rnas written by Nils Walter and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-11-18 with Science categories.
The 2006 Nobel Prize in Physiology or Medicine was awarded to the discoverers of RNA interference, Andrew Fire and Craig Mello. This prize, which follows “RNA” Nobels for splicing and RNA catalysis, highlights just one class of recently discovered non-protein coding RNAs. Remarkably, non-coding RNAs are thought to outnumber protein coding genes in mammals by perhaps as much as four-fold. In fact, it appears that the complexity of an organism correlates with the fraction of its genome devoted to non-protein coding RNAs. Essential biological processes as diverse as cell differentiation, suppression of infecting viruses and parasitic tra- posons, higher-level organization of eukaryotic chromosomes, and gene expression are found to be largely directed by non-protein coding RNAs. Currently, bioinformatic, high-throughput sequencing, and biochemical approaches are identifying an increasing number of these RNAs. Unfortunately, our ability to characterize the molecular details of these RNAs is significantly lacking. The biophysical study of these RNAs is an emergent field that is unraveling the molecular underpinnings of how RNA fulfills its multitude of roles in sustaining cellular life. The resulting understanding of the physical and chemical processes at the molecular level is critical to our ability to harness RNA for use in biotechnology and human therapy, a prospect that has recently spawned a multi-billion dollar industry.
Protein Engineering
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Author : Tomohisa Ogawa
language : en
Publisher: BoD – Books on Demand
Release Date : 2013-05-29
Protein Engineering written by Tomohisa Ogawa and has been published by BoD – Books on Demand this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013-05-29 with Science categories.
Given the centrality of protein to many biological process, this book makes a significant contribution to the fields of healthcare and nutrition. Its chapters consider topics such as protein-protein and protein-ligand docking, and the protein engineering of enzymes involved in bioplastic metabolism. One contribution gives an overview of the In Vitro Virus (IVV) analytic method, while another shows how cutting-edge techniques in protein engineering advance our knowledge in the field of palaeontology. The book also includes a review of classic and alternative strategies when using yeasts in research, with a focus on Pichia pastoris as a host. Finally, there are two contributions on chromatography: one on the method itself, and another on its use to identify HMGB1-binding components.
National Library Of Medicine Programs And Services
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Author : National Library of Medicine (U.S.)
language : en
Publisher:
Release Date : 1981
National Library Of Medicine Programs And Services written by National Library of Medicine (U.S.) and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 1981 with categories.
Molecular Identification Systematics And Population Structure Of Prokaryotes
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Author : Erko Stackebrandt
language : en
Publisher: Springer Science & Business Media
Release Date : 2010-09-08
Molecular Identification Systematics And Population Structure Of Prokaryotes written by Erko Stackebrandt and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-09-08 with Science categories.
Systematic biology has a far wider application than merely the provision of a reliable classification scheme for new strains. With the framework of the hierarchic system stabilizing, genomes, noncoding regions, and genes and their products can now be evaluated in an evolutionary context. This book summarizes recent developments in the molecular characterization of cultured and as-yet uncultured prokaryotes, emphasizing the strengths and weaknesses of individual approaches. The chapters of the book are compiled to stimulate students to enter the field of bacterial diversity, presenting a broad spectrum of fascinating multifaceted disciplines that illuminate the paths to ecosystem functioning, communication within communities, symbiosis, life in extreme environments, astrobiology, and more.
Yeast Stress Responses
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Author : Stefan Hohmann
language : en
Publisher: Springer Science & Business Media
Release Date : 2007-10-23
Yeast Stress Responses written by Stefan Hohmann and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2007-10-23 with Science categories.
Every cell has developed mechanisms to respond to changes in its environment and to adapt its growth and metabolism to unfavorable conditions. The unicellular eukaryote yeast has long proven as a particularly useful model system for the analysis of cellular stress responses, and the completion of the yeast genome sequence has only added to its power This volume comprehensively reviews both the basic features of the yeast genral stress response and the specific adapations to different stress types (nutrient depletion, osmotic and heat shock as well as salt and oxidative stress). It includes the latest findings in the field and discusses the implications for the analysis of stress response mechanisms in higher eukaryotes as well.