Gene Mapping Discovery And Expression Methods in Molec Bio 338 1st Edition by Minou Bina ISBN 978-1588295750 1588295753

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ISBN 10: 1588295753

ISBN 13:  978-1588295750

Author:  Minou Bina

Completion of the sequence of the human genome represents an unpar- leled achievement in the history of biology. The project has produced nearly complete, highly accurate, and comprehensive sequences of genomes of s- eral organisms including human, mouse, drosophila, and yeast. Furthermore, the development of high-throughput technologies has led to an explosion of projects to sequence the genomes of additional organisms including rat, chimp, dog, bee, chicken, and the list is expanding. The nearly completed draft of genomic sequences from numerous species has opened a new era of research in biology and in biomedical sciences. In keeping with the interdisciplinary nature of the new scientific era, the chapters in Gene Mapping, Discovery, and Expression: Methods and Protocols recapitulate the necessity of integration of experimental and computational tools for solving – portant research problems. The general underlying theme of this volume is DNA sequence-based technologies. At one level, the book highlights the importance of databases, genome-browsers, and web-based tools for data access and ana- sis. More specifically, sequencing projects routinely deposit their data in p- licly available databases including GenBank, at the National Center of Biotechnology (NCBI) in the United States; EMBL, maintained by the European Bioinformatics Institute; and DDBJ, the DNA Data Bank of Japan. Currently, several browsers offer facile access to numerous genomic DNA sequences for gene mapping and data retrieval.

Table of contents: 

1. Using the Genome Browser to Identify Your Favorite Gene Locations – Minou Bina

2. Methods for Identifying and Mapping Recent Segmental and Gene Duplications in Eukaryotic Genomes – Razi Khaja, Jeffrey R. MacDonald, Junjun Zhang, and Stephen W. Scherer

3. Identifying and Mapping Homologous Genes in Known DNA Sequences – Minou Bina

4. Quantitative DNA Fiber Mapping in Genome Research and Physical Mapping – Heinz-Ulrich G. Weier and Lisa W. Chu

5. PRINS for Single Copy Gene Mapping – Avirachan T. Tharapel and Stephen S. Wachtel

6. VISTA Family of Computational Tools for Comparative Analysis of DNA Sequences and Whole Genomes – Inna Dubchak and Dmitriy V. Ryaboy

7. Computational Prediction of Cis-Regulatory Modules from Multispecies Alignments Using Galaxy, Table Browser, and GALA – Laura Elnitski, David King, and Ross C. Hardison

8. Comparative Analysis of Promoter Sequences in Vertebrate Genomes Using the CORG Workbench – Christoph Dieterich and Martin Vingron

9. Analysis of Cis-Regulatory Regions Using BEARR – Vinsensius Berlian Vega

10. 9-Mer Database from Protein-Coding Gene Promoter Regions in Humans – Minou Bina, Phillip Wyss, and Syed Rehan Shah

11. Toolkit for Analyzing Gene Regulatory Regions – Phillip Wyss, Sheryl A. Lazarus, and Minou Bina

12. Analysis of Allele-Specific Gene Expression – Julian C. Knight

13. Constructing Vectors Containing MicroRNA for Expression in Mammalian Cells – Yoko Fukuda, Hiroaki Kawasaki, and Kazunari Taira

14. Mining Microarray Data at Gene Expression Omnibus (GEO) from NCBI – Tanya Barrett and Ron Edgar

15. Stanford Microarray Database: User Guide – Jeremy Gollub, Catherine A. Ball, and Gavin Sherlock

16. Identification of Nucleosome Stages on Unique DNA Sequences in Mouse Liver – Tomara J. Fleury, Alfred Cioffi, and Arnold Stein

17. DNA Methyltransferase Probing DNA-Protein Interactions – Scott A. Hoose and Michael P. Kladde

18. Protein Binding Microarrays (PBM) for Rapid, High-Throughput Characterization of DNA Binding Protein Specificities – Michael F. Berger and Martha L. Bulyk

19. Quantitative Profiling of Protein-DNA Binding on Microarrays – Jiannis Ragoussis, Simon Field, and Irina A. Udalova

20. Protein-DNA Binding Analysis by Streptavidin-Agarose Pulldown – Kenneth K. Ngo

21. Isolation and Mass Spectrometry of Specific DNA-Binding Proteins – Mariana Yaneva and Paul Tempst

22. Isolation of Transcription Factor Complexes via In Vivo Biotin Tagging and Direct Streptavidin Binding – Patrick Rodriguez, Harald Braun, Katarzyna E. Kolodziej, Ernie de Boer, Jennifer Campbell, Edgar Bonte, Frank Grosveld, Sjaak Philipsen, and John Strouboulis

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Tags: Minou Bina, Gene Mapping Discovery, Expression Methods