 |
|
Free shopping in a virtual bazaar of gene regulation data
October 04, 2007An international team has opened a virtual bazaar, called PAZAR, which allows biologists to share information about gene regulation through individually managed 'boutiques' (data collections). According to research published in the online open access journal, Genome Biology, customers can access data without any charge from any boutique or extract information from the 'superstores' that aggregate data of similar types.
In deciphering the human genome sequence, researchers hope to understand the when and where of gene expression because this could speed development of novel cancer therapies or stem cell treatments for degenerative disease, and explain complex diseases such as diabetes.
Much of the information gathered in costly studies of gene regulation is poorly accessible if available at all. Individual research teams often generate databases or post files on the internet, but these data are fragmented and can be lost over time. The research team, led by Wyeth Wasserman at the University of British Columbia and Child & Family Research Institute, Vancouver, Canada, and colleagues from Bulgaria, Canada, France, and the USA, describe a novel approach to managing this information by bringing it together for the first time using PAZAR.
PAZAR is, explain the researchers, "an open-access and open-source database of transcription factor and regulatory sequence annotation". As such, it fulfils a longstanding need for a large data collection of regulatory sequences unrestricted by commercial concerns. Its novel shopping-mall-like structure (pazar is Bulgarian for shopping mall) will allow researchers to share data collections and computational predictions in an organized and accessible manner.
In order to demonstrate the advantages and features of PAZAR and its depth of annotation, the researchers used the Pleiades Promoter Project collection of brain-linked regulatory sequences as a show case. They have been working internationally with boutique operators and are currently expanding the data represented, and improving the curation tools. By bringing small data collections together Wasserman and colleagues are aiming to bring the data to international scientific customers and are encouraging other researchers to open new boutiques in this genomic mall.
BioMed Central
PAZAR is, explain the researchers, "an open-access and open-source database of transcription factor and regulatory sequence annotation". As such, it fulfils a longstanding need for a large data collection of regulatory sequences unrestricted by commercial concerns. Its novel shopping-mall-like structure (pazar is Bulgarian for shopping mall) will allow researchers to share data collections and computational predictions in an organized and accessible manner.
In order to demonstrate the advantages and features of PAZAR and its depth of annotation, the researchers used the Pleiades Promoter Project collection of brain-linked regulatory sequences as a show case. They have been working internationally with boutique operators and are currently expanding the data represented, and improving the curation tools. By bringing small data collections together Wasserman and colleagues are aiming to bring the data to international scientific customers and are encouraging other researchers to open new boutiques in this genomic mall.
BioMed Central
Gene Regulation Current Events and Gene Regulation News RSSTechnique finds gene regulatory sites without knowledge of regulators
A new statistical technique developed by researchers at the University of Illinois allows scientists to scan a genome for specific gene-regulatory regions without requiring prior knowledge of the relevant transcription factors.
New research into the mechanisms of gene regulation
A team led by Penn State's Ross Hardison, T. Ming Chu Professor of Biochemistry and Molecular Biology, has taken a large step toward unraveling how regulatory proteins control the production of gene products during development and growth.
Researchers 'notch' a victory toward new kind of cancer drug
Scientists have devised an innovative way to disarm a key protein considered to be "undruggable," meaning that all previous efforts to develop a drug against it have failed.
How RNA polymerase II gets the go-ahead for gene transcription
All cells perform certain basic functions. Each must selectively transcribe parts of the DNA that makes up its genome into RNAs that specify the structure of proteins.
Launch of the first standard graphical notation for biology
Researchers at the European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) and their colleagues in 30 labs worldwide have released a new set of standards for graphically representing biological information - the biology equivalent of the circuit diagram in electronics.
Caltech scientists help launch the first standard graphical notation for biology
Researchers at the California Institute of Technology (Caltech) and their colleagues in 30 laboratories worldwide have released a new set of standards for graphically representing biological information-the biology equivalent of the circuit diagram in electronics.
Scientists find universal rules for food-web stability
The findings, published in this week's issue of Science, conclude that food-web stability is enhanced when many diverse predator-prey links connect high and intermediate trophic levels.
Algebra adds value to mathematical biology education
As mathematics continues to become an increasingly important component in undergraduate biology programs, a more comprehensive understanding of the use of algebraic models is needed by the next generation of biologists to facilitate new advances in the life sciences, according to researchers at Sweet Briar College and the Virginia Bioinformatics Institute (VBI) at Virginia Tech.
Cancer's distinctive pattern of gene expression could aid early screening and prevention
Distinctive patterns of genes turned off - or left on - in healthy versus cancerous cells could enable early screening for many common cancers and maybe help avoid them, Medical College of Georgia scientists say.
Small molecules mimic natural gene regulators
In the quest for new approaches to treating and preventing disease, one appealing route involves turning genes on or off at will, directly intervening in ailments such as cancer and diabetes, which result when genes fail to turn on and off as they should.
More Gene Regulation Current Events and Gene Regulation News Articles
 |
Gene Regulation: A Eukaryotic Perspective by D.S. Latchman (Author) Gene Regulation provides a complete and concise picture of the processes regulating gene expression in higher organisms and man. The second edition of this well reviewed textbook has been extensively updated to reflect the scientific progress made in this area over the last four years. |
 |
Gene Expression and Regulation by Jun Ma (Author) This book offers a comprehensive look into the science of gene expression and regulation. Focusing on topics such as actions of nuclear receptors, RNA processing, and DNA methylation and imprinting, "Gene Expression and Regulation" is edited by a leading biologist and includes contributions by experts in the field. Presented in the following five sections, this book covers a full spectrum of topics: The History; The Machinery; The Regulators; The Genome; and Special Topics. The Machinery section covers the transcriptional apparatus and general transcription factors. The Regulators section examines selected gene-specific transcription factors important to regulating gene expression. The Genome section covers issues relevant to the behavior of the genome in relation to gene regulation. The... |
 |
Anatomy of Gene Regulation: A Three-dimensional Structural Analysis by Panagiotis A. Tsonis (Author) Anatomy of Gene Regulation is the first book to present the parts and processes of gene regulation at the three-dimensional level. Vivid structures of nucleic acids and their companion proteins are revealed in full-color, three dimensional form. Beginning with a general introduction to three-dimensional structures, the book looks at the organization of the genome, the structure of DNA, DNA replication and transcription, splicing, protein synthesis, and ultimate protein death. This concise and unique synthesis and its accompanying web site offer insight into gene regulation, and into the development of methods to interfere with regulation at diseased states. |
 |
Regulation of Gene Expression by Gary H. Perdew (Author), Jack P. Vanden Heuvel (Author), Jeffrey M. Peters (Author) Regulation of Gene Expression: Molecular Mechanisms presents a comprehensive overview of methods and approaches for characterizing mechanisms of gene regulation. The text is appropriate both as a graduate textbook and a standard laboratory reference and provides the essential groundwork for an advanced understanding of the various mechanisms that may result in altered activity of a specific cell protein. Each of three sections explores mechanisms of gene regulation and expression, and presents methods and protocols for achieving specific experimental goals. Part I focuses on approaches for studying control of mRNA expression and determining target genes for a given transcription copy. Part II outlines the methods for determining how proteins can regulate each other by mediating... |
 |
Biothiols, Part B: Glutathione and Thioredoxin: Thiols in Signal Transduction and Gene Regulation, Volume 252 (Methods in Enzymology) by John N. Abelson (Editor), Melvin I. Simon (Editor), Helmut Sies (Editor) The critically acclaimed laboratory standard for forty years, Methods in Enzymology is one of the most highly respected publications in the field of biochemistry. Since 1955, each volume has been eagerlyawaited, frequently consulted, and praised by researchers and reviewers alike. More than 250 volumes have been published (all of them still in print) and much of the material is relevant even today--truly an essential publication for researchers in all fields of life sciences. Key Features * Distribution, biosynthesis, metabolism, and transport of glutathione * Signal transduction and gene regulation * Thioredoxin and glutaredoxin * Mimics of biological thiols and thiol inhibitors |
 |
Regulation of Gene Expression by Small RNAs by Rajesh K. Gaur (Editor), John J. Rossi (Editor) New Findings Revolutionize Concepts of Gene Function Endogenous small RNAs have been found in various organisms, including humans, mice, flies, worms, fungi, and bacteria. Furthermore, it’s been shown that microRNAs acting as cellular rheostats have the ability to modulate gene expression. In higher eukaryotes, microRNAs may regulate as much as 50 percent of gene expression. Regulation of Gene Expression by Small RNAs brings together the pioneering work of researchers who discuss their work involving a wide variety of small RNA regulatory pathways in organisms ranging from bacteria to humans. In addition to exploring the biogenesis and processing of these regulatory RNAs, they also consider the functional importance of these pathways in host organisms. Assisting... |
 |
Regulation of Gene Expression in the Tumor Environment: Regulation of melanoma progression by the microenvironment: the roles of PAR-1 and PAFR (The Tumor Microenvironment) by Menashe Bar-Eli (Author), Menashe Bar-Eli (Editor) It is now becoming very clear that the development and progression of tumor towards the malignant (metastatic) phenotype depends tightly on the interaction between the tumor cells and the tumor microenvironment. Tumor cells respond to stimuli generated within the tumor microenvironment for their growth advantage while the tumor cell themselves reshape and remodel the architecture and function of their extracellular matrices. The term tumor microenvironment is a wide umbrella consisting of stromal cells such as fibroblasts and endothelial cells and infiltration immune cells including T and B cells, macrophages, and other inflammatory cells (PMNs). These different components of the tumor microenvironment could have stimulatory and inhibitory effects on tumor progression by regulating the... |
 |
Molecular Biology of the Gene (6th Edition) by James D. Watson (Author), Tania A. Baker (Author), Stephen P. Bell (Author), Alexander Gann (Author), Michael Levine (Author), Richard Losick (Author), Inglis CSHLP (Author) Though completely up-to-date with the latest research advances, the Sixth Edition of James D. Watson’s classic book, Molecular Biology of the Gene retains the distinctive character of earlier editions that has made it the most widely used book in molecular biology. Twenty-two concise chapters, co-authored by six highly respected biologists, provide current, authoritative coverage of an exciting, fast-changing discipline. Mendelian View of the World, Nucleic Acids Convey Genetic Information,The Importance of Weak Chemical Interactions, The Importance of High Energy Bonds, Weak and Strong Bonds Determine Macromolecular Interactions, The Structures of DNA and RNA, Genome Structure, Chromatin and the Nucleosome, The Replication of DNA, The Mutability and Repair of... |
 |
RNA and the Regulation of Gene Expression: A Hidden Layer of Complexity by Kevin V. Morris (Editor) |
 |
Genes, Trade, and Regulation: The Seeds of Conflict in Food Biotechnology by Thomas Bernauer (Author) Agricultural (or "green") biotechnology is a source of growing tensions in the global trading system, particularly between the United States and the European Union. Genetically modified food faces an uncertain future. The technology behind it might revolutionize food production around the world. Or it might follow the example of nuclear energy, which declined from a symbol of socioeconomic progress to become one of the most unpopular and uneconomical innovations in history. This book provides novel and thought-provoking insights into the fundamental policy issues involved in agricultural biotechnology. Thomas Bernauer explains global regulatory polarization and trade conflict in this area. He then evaluates cooperative and unilateral policy tools for coping with trade tensions.... |
| © 2009 BrightSurf.com |