Cardiac gene expression : methods and protocols / edited by Jun Zhang and Gregg Rokosh.

Format:

Book

Contributor:

Zhang, Jun, 1968-

Rokosh, Gregg.

Series:

Methods in molecular biology (Clifton, N.J.) ; v. 366.

Methods in molecular biology ; 366

Language:

English

Subjects (All):

Myocardium--Laboratory manuals.

Myocardium.

Gene expression--Laboratory manuals.

Gene expression.

Genetic regulation--Laboratory manuals.

Genetic regulation.

Gene Expression Regulation.

Gene Expression Profiling.

Medical Subjects:

Gene Expression Regulation.

Gene Expression Profiling.

Myocardium.

Genre:

Laboratory manuals.

Physical Description:

xi, 365 pages : illustrations ; 24 cm.

Place of Publication:

Totowa, N.J. : Humana Press, [2007]

Summary:

Cardiac Gene Expression: Methods and Protocols presents both cutting-edge and established methods for studying cardiac gene expression. The protocols provide a template for solid research, and cover the process through screening, analysis, characterization, and functional confirmation of novel genes or known genes with a new function.

Section I, Cardiac Gene Expression Profiling: The Global Perspective, discusses several different approaches to examining, identifying, and analyzing changes in transcriptome gene expression. Section II, Cardiac Gene Regulation: Gene-Specific mRNA Measurement in the Myocardium, outlines more sensitive and gene-targeted expression methods. Section III, Cardiac Gene Regulation: Promoter Characterization in the Myocardium, provides protocols for the study of underlying gene regulation mechanisms by focusing on the interaction of transcription factors with their cognate cis binding elements. Section IV, In Silico Assessment of Regulatory cis-Elements and Gene Regulation, and Section V, Cardiac Single Network Polymorphisms, emphasize new analytical approaches for deciphering the functional elements buried in the 3 billion nucleotides of the human genome and other model genomes. The concluding section, Gene Overexpression and Targeting in the Myocardium, highlights methods that facilitate overexpression or cardiac-specific targeted gene deletion.

Features: Resources for the analysis of gene regulation data and SNPs, Comparative genomic approach for functionally annotating human DNA, Quantitative, real-time RT-PCR in cardiovascular research, In silico analysis of SNPs and other high-throughput data, Conditional targeting in the myocardium.

Contents:

Part I Cardiac Gene Expression: The Global Perspective

1 Microarray Analysis of Gene Expression in Murine Cardiac Graft Infiltrating Cells / Yurong Liang, Xin Lu, David L. Perkins 3

2 Expression Profiling Using Affymetrix GeneChip Probe Arrays / Martina Schinke-Braun, Jennifer A. Couget 13

3 Serial Analysis of Gene Expression (SAGE): A Useful Tool to Analyze the Cardiac Transcriptome / Kirill V. Tarasov, Sheryl A. Brugh, Yelena S. Tarasova, Kenneth R. Boheler 41

4 Functional Genomics by cDNA Subtractive Hybridization / Christophe Depre 61

5 Statistical Methods in Cardiac Gene Expression Profiling: From Image to Function / Sek Won Kong 75

Part II Cardiac Gene Regulation: Gene-Specific mRNA Measurement in the Myocardium

6 Measurement of Cardiac Gene Expression by Reverse Transcription Polymerase Chain Reaction (RT-PCR) / Nicola King 709

7 Quantitative (Real-Time) RT-PCR in Cardiovascular Research / Kevin John Ashton, John Patrick Headrick 121

8 RNase Protection Assay for Quantifying Gene Expression Levels / Yongxia Qu, Mohamed Boutjdir 145

9 In Situ Hybridization: A Technique to Study Localization of Cardiac Gene Expression / Thierry P. Calmels, David Mazurais 159

Part III Cardiac Gene Regulation: Promoter Characterization in the Myocardium

10 Characterization of cis-Regulatory Elements and Transcription Factor Binding: Gel Mobility Shift Assay / Jim Jung-Ching Lin, Shaun E. Grosskurth, Shannon M. Harlan, Elisabeth A. Gustafson-Wagner, Qin Wang 183

11 Mapping Transcriptional Start Sites and In Silico DNA Footprinting / Martin E. Cullen, Paul J. R. Barton 203

12 Characterization of Cardiac Gene Promoter Activity: Reporter Constructs and Heterologous Promoter Studies / Hsiao-Huei Chen, Alexandre F. R. Stewart 217

Part IV In Silico Assessment of Regulatory cis -Elements and Gene Regulation

13 Comparative Genomics: A Tool to Functionally Annotate Human DNA / Jan-Fang Cheng, James R. Priest, Len A. Pennacchio 229

14 Developing Computational Resources in Cardiac Gene Expression / Michael B. Bober, Raimond Winslow 253

Part V Cardiac Single Nucleotide Polymorphisms

15 In Silico Analysis of SNPs and Other High-Throughput Data / Neema Jamshidi, Thuy D. Vo, Bernhard O. Palsson 267

16 Discovery and Identification of Sequence Polymorphisms and Mutations with MALDI-TOF MS / Dirk van den Boom, Mathias Ehrich 287

Part VI Gene Overexpression and Targeting in the Myocardium

17 Conditional Targeting: Inducible Deletion by Cre Recombinase / Kelly R. O'Neal, Ramtin Agah 309

18 Cardiomyocyte Preparation, Culture, and Gene Transfer / Alexander H. Maass, Massimo Buvoli 321

19 Adeno-Associated Viral Vector-Delivered Hypoxia-Inducible Gene Expression in Ischemic Hearts / Hua Su, Yuet Wai Kan 331

20 Lentivirus-Mediated Gene Expression / Jing Zhao, Andrew M. L. Lever 343.

Notes:

Includes bibliographical references and index.

ISBN:

1588293521

9781588293527

OCLC:

65195270