Biotech Books and Resourses
Below you will find some of the books recommended
by the Biotech Learning Institute. If you see a book that you like
please add it to your shopping cart.
- RNA Interference (RNAi) Nuts and Bolts of
RNAi technology, by Dr. David Engelke
- DNA Array Image Analysis Nuts and Bolts,
by Gerda Kamberova (Editor), Shishir Shah
- DNA Microarrays and
Gene Expression, by Pierre Baldi (Author), et al
- Microarrays Methods
and Applications, by Gary Hardiman (Editor)
- Microarrays for an
Integrative Genomics (Computational Molecular Biology), by
I. S. Kohane, et al
- Statistical Analysis of Gene Expression
Microarray Data, by T. P. Speed (Editor)
- A Biologist's Guide to Analysis of
DNA Microarray Data, by Steen Knudsen (Author)
- Data Analysis Tools for DNA Microarrays,
by Sorin Draghici
- Microarray Gene Expression Data Analysis,
by Helen C. Causton, et al
- Bioinformatics for Dummies, by
Jean-Michel Claverie (Author), Cedric Notredame (Author)
- DNA Microarrays, by David Bowtell
(Editor), Joseph Sambrook (Editor)
 RNA
Interference - Nuts & Bolts of RNAi technology
Price: $44.95
Editor:
David Engelke
ISBN: 0966402782
"This book offers protocols and advice for the use of RNA
interference for knocking down expression of target genes in a number
of different eukaryotes. Varied applications in mammalian systems
are explored in depth by authors currently working at the leading
edge of RNA Interference methodologies.
Chapters include:
- RNAi in plants
- RNAi in Drosophila
- RNAi in C. elegan
- RNAi in mammalian systems
- RNAi in mice
- Design, synthesis and preparation of synthetic RNAi
- Expression of RNAi from recombinant DNA and viral vectors
- High-throughput applications
- Emerging alternative RNAi methods"
Summary of Chapters
Chapter 1: Targeted gene silencing in plants using
RNA interference
The authors of this chapter focus on the design and use of vectors
for targeted gene silencing in plants with RNAi. A brief historical
perspective of RNAi research in plants is presented with a list
of useful references.
Chapter 2: RNAi in Caenorhabditis elegans
In this chapter, the authors discuss the molecular mechanisms,
techniques, and applications of RNAi in C. elegans, which was the
first multicellular organism to have its genome sequenced. Theoretical
considerations and practical approaches are presented in detail.
Chapter 3: Application and analysis of RNAi in
Drosophila systems
This chapter describes the application and analysis of RNAi in
Drosophila embryo extracts, cultured SL2 cells and in Drosophila
embryo development.
Chapter 4: Gene silencing by synthetic siRNA duplexes
in mammalian cell culture
This chapter discusses the design and application of synthetic siRNA
duplexes for use in mammalian tissue culture. The authors address
the advantages of chemically synthesized siRNA duplexes over alternative
RNAi protocols. Detailed descriptions of structure, nucleotide composition,
target mRNA, and protocol steps are offered..
Chapter 5: Strategies for synthesizing Small Interfering
RNA (siRNA)
This chapter provides (1) a complete review of various chemical
methods of RNA synthesis; (2) a brief analysis of each of the four
alternative siRNA production methods; and (3) a comparative analysis
of the relevant utility of all five methods from the perspective
of the RNAi practitioner.
Chapter 6: Generating long dsRNA, individual siRNA
and siRNA cocktails in vitro
This chapter discusses methods for producing long dsRNA and short
interfering RNA using high yield in vitro transcription reactions.
Chapter 7: Optimizing high throughput RNAi-based
assays using transient transfection of synthetic siRNAs in cultured
mammalian cells
The authors focus on methods for the high throughput characterization
of gene functions using siRNAs in mammalian cell cultures, to enable
the analysis of a few dozen, hundred or thousand gene targets through
a panel of primary screening assays, and to retain the promising
ones for more in-depth secondary assays.
Chapter 8: Subcellular delivery and detection of small interfering
RNA
Small interfering RNAs (siRNAs) can be expressed in human cells
for the down-regulation of specific genes. Localization of the siRNA
in the cell is a key factor for success. Expression cassettes, based
on several RNApolymerase III promoters, provide a means of synthesizing
siRNA hairpins endogenously and the design of the cassettes provides
for delivery of the siRNA to different sub cellular locations. Sites
of sub cellular localization are determined by in situ hybridization
using fluorescently tagged 2'-O-methyl RNA probes. Expression from
a U6 snRNA promoter results in nuclear accumulation of the siRNA
and reduced target levels. In contrast, promoter cassettes that
result in nucleolar and cytoplasmic localization of the siRNA are
not effective.
Chapter 9: Downregulation of cellular genes by
PCR products expressing siRNAs in Mammalian Cells
Despite the great potential for research application of siRNAs,
identifying optimal siRNAs target sites holds some difficulties
and it is critical for siRNAs function. One possible way of overcoming
this limitation is to have a simple screening procedure that allows
the testing of several different sites along a messenger RNA for
sensitivity to siRNA. The PCR based method discussed in this chapter
has proven to be both facile and robust. The method involves creation
of Pol III transcription units by PCR, and direct transfection and
testing of these products for siRNA function in cell culture. The
chapter discusses protocols and tips in detail.
Chapter 10: Generating Adenoviruses for shRNA
or siRNA Delivery
The utility of RNAi as a research tool may be limited by transfection
efficiency. Adenovirus vectors efficiently transducer multiple cell
types in vitro and in vivo. This chapter serves as a guide to merge
the powerful utility of RNAi with the ease of generating and using
recombinant adenovirus vectors. Recombinant adenoviruses expressing
inhibitory RNAs from constitutive or regulated promoters will find
broad applications to studies employing gene silencing.
Chapter 11: Achieving Stable, Heritable Gene Silencing
in the Mouse
The authors analyze methods available for creating transgenic models
of RNAi in the mouse. Spatial and temporal control of silencing
is discussed.
Editor: David Engelke, Ph.D.
David R. Engelke is a Professor of Biological Chemistry and Director
of the Program in Biomedical Sciences at the University of Michigan.
His laboratory works on the biosynthesis of small RNAs in eukaryotic
nuclei, including transcription, localization, and processing mechanisms.
His laboratory has contributed to an understanding of how small
interfering RNAs can be expressed within human cells. He is the
Deputy Editor the journal of the international RNA Society, RNA,
and on the editorial board of Nucleic Acids Research.
Cover
Scanning Electron Micrograph of an adult C. elegans male tail.
Image by Maureen M. Barr and Renee L. Engle (University of Wisconsin
Madison). Photograph was obtained by M.M.B. using a Hitachi S-570
SEM at the E.M. Facility, Building 177B, USDA, Beltsville, MD with
the help of Dr. Lynn Carta (USDA) and support of Dr. Paul W. Sternberg
(Investigator, Howard Hughes Medical Institute, California Institute
of Technology).
DNA Array Image Analysis: Nuts & Bolts
Price: $29.95
Editors: Gerda Kamberova (Editor), Shishir Shah
ISBN:
 Book
Info
Text provides a comprehensive introduction to micro array image
analysis and includes basic and advanced topics emphasizing aspects
of theory and application. Offers practical tips for the novice
and advanced user. Expanded-outline format. Softcover.
About the Author
Gerda Kamberova is an assistant professor in computer science at
Hofstra University, New York. She teaches computer vision, computer
graphics, and artificial intelligence. Shishir Shah is an associate
professor at Wayne State University in Detroit, Michigan. Dr. Shah
is an author of numerous publications on image analysis and data
mining.
Book Description
Common to all DNA and protein array-based technologies is the necessity
to analyze digital images of the scanned DNA array. The focus of
Kamberova and Shah book is microarray image analysis-from theoretical
and application perspective. The topic of microarray image processing
is usually neglected due to the availability of various software
tools for image processing. The focus of today microarray bioinformatics
is data analysis. However, how can one be certain that the data
obtained from a microarray experiment through the image analysis
is of high quality? How can one perform data mining on data derived
from different microarray technologies, where microarray images
were analyzed with different image analysis softwares? This book
addresses various questions related to microarray image processing.
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