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In Silico Tools for Gene Discovery

  • Kartonierter Einband
  • 380 Seiten
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This volume provides brief introductions and clear instructions for the applications of many common and useful in silico tools. It... Weiterlesen
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Beschreibung

This volume provides brief introductions and clear instructions for the applications of many common and useful in silico tools. It features a variety of tools with easy to follow methodologies and includes key tips and vital implementation advice.


As functional genomics has become one of the major focuses in molecular biology, the need for more sophisticated tools to assist in the identification of the functionality of undefined genes and the correlation of DNA variants with a particular phenotype has increased greatly. In Silico Tools for Gene Discovery collects many common and useful in silico tools available today. The volume begins by investigating locus mapping information on linkage analysis, association mapping, integrative analysis, and exome analysis as well as tools for DNA marker selection, in silico PCR, and statistical analysis. It continues with a section on gene discovery from a defined locus, including gene prioritization, knowledge tracking, and data mining, and concludes with several useful in silico tools presented for the functional characterization of genes, which include DNA sequencing analysis, variant characterization, as well as RNA and protein analysis. Written in the highly successful Methods in Molecular Biology™ series format, chapters include introductions to their respective topics, step-by-step, readily reproducible protocols, and vital notes on troubleshooting and avoiding known pitfalls.

Resourceful and easy to follow, In Silico Tools for Gene Discovery seeks to facilitate scientists with further key research on locus mapping, to accelerate gene identification, and to help ascertain the functionality of DNA variation.

Provides brief introductions and clear instructions for the applications of each particular in silico tool

Features a wide variety of tools with easy to follow methodologies

Includes key tips and vital implementation advice straight from the experts

Includes supplementary material: sn.pub/extras



Inhalt

1. Accessing and Selecting Genetic Markers from Available Resources

Christopher G. Bell

2. Linkage Analysis

Jennifer H. Barrett and M. Dawn Teare

3. Association Mapping

Jodie N. Painter, Dale R. Nyholt, and Grant W. Montgomery

4. The ForeSee (4C) Approach for Integrative Analysis in Gene Discovery

Yike Guo, Robin E.J. Munro, Dimitris Kalaitzopoulos, and Anita Grigoriadis

5. R Statistical Tools for Gene Discovery

Andrea S. Foulkes and Kinman Au

6. In Silico PCR Analysis

Bing Yu and Changbin Zhang

7. In Silico Analysis of the Exome for Gene Discovery

Marcus Hinchcliffe and Paul Webster

8. In Silico Knowledge and Content Tracking

Herman van Haagen and Barend Mons

9. Application of Gene Ontology to Gene Identification

Hugo Bastos, Bruno Tavares, Catia Pesquita, Daniel Faria, and Francisco Couto

10. Phenotype Mining for Functional Genomics and Gene Discovery

Philip Groth, Ulf Leser, and Bertram Weiss

11. Conceptual Thinking for In Silico Prioritization of Candidate Disease Genes

Nicki Tiffin

12. Web Tools for the Prioritization of Candidate Disease Genes

Martin Oti, Sara Ballouz, and Merridee A. Wouters

13. Comparative View of In Silico DNA Sequencing Analysis Tools

Sissades Tongsima, Anunchai Assawamakin, Jittima Piriyapongsa, and Philip J. Shaw

14. Mutation Surveyor: An In Silico Tool for Sequencing Analysis

Chongmei Dong and Bing Yu

15. In Silico Searching for Disease-Associated Functional DNA Variants

Rao Sethumadhavan, C. George Priya Doss, and R. Rajasekaran

16. In Silico Prediction of Transcriptional Factor Binding Sites

Dmitry Y. Oshchepkov and Victor G. Levitsky

17. In Silico Prediction of Splice-Affecting Nucleotide Variants

Claude Houdayer

18. In Silico Tools for qPCR Assay Design and Data Analysis

Stephen Bustin, Anders Bergkvist, and Tania Nolan

19. RNA Structure Prediction

Stephan Bernhart

20. In Silico Prediction of Post-Translational Modifications

Chunmei Liu and Hui Li

21. In Silico Protein Motif Discovery and Structural Analysis

Catherine Mooney,Norman Davey, Alberto J.M. Martin, Ian Walsh, Denis C. Shields, and Gianluca Pollastri

Produktinformationen

Titel: In Silico Tools for Gene Discovery
Editor:
EAN: 9781493961887
ISBN: 1493961888
Format: Kartonierter Einband
Herausgeber: Humana Press
Genre: Medizin
Anzahl Seiten: 380
Gewicht: 713g
Größe: H254mm x B178mm x T20mm
Jahr: 2016
Untertitel: Englisch
Auflage: Softcover reprint of the original 1st ed. 2011

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