From: Chapter 16, Molecular pathology
- Preface
- Before we start – genetic data and the Internet
- Chapter 1. DNA structure and gene expression
- Chapter 2. Chromosomes in cells
- Chapter 3. Genes in pedigrees
- Chapter 4. Cell-based DNA cloning
- Chapter 5. Nucleic acid hybridization assays
- 5.1 Preparation of nucleic acid probes
- 5.2 Principles of nucleic acid hybridization
- 5.3 Nucleic acid hybridization assays using cloned DNA probes to screen uncloned nucleic acid populations
- 5.4 Nucleic acid hybridization assays using cloned target DNA, and microarray hybridization technology
- Further reading
- References
- Chapter 6. PCR, DNA sequencing and in vitro mutagenesis
- Chapter 7. Organization of the human genome
- Chapter 8. Human gene expression
- 8.1 An overview of gene expression in human cells
- 8.2 Control of gene expression by binding of trans-acting protein factors to cis-acting regulatory sequences in DNA and RNA
- 8.3 Alternative transcription and processing of individual genes
- 8.4 Asymmetry as a means of establishing differential gene expression and DNA methylation as means of perpetuating differential expression
- 8.5 Long-range control of gene expression and imprinting
- 8.6 The unique organization and expression of Ig and TCR genes
- Further reading
- Electronic references (e-Refs)
- References
- Chapter 9. Instability of the human genome: mutation and DNA repair
- Chapter 10. Physical and transcript mapping
- Chapter 11. Genetic mapping of mendelian characters
- Chapter 12. Genetic mapping of complex characters
- 12.1 Parametric linkage analysis and complex diseases
- 12.2 Nonparametric linkage analysis does not require a genetic model
- 12.3 Association is in principle quite distinct from linkage, but where the family and the population merge, linkage and association merge
- 12.4 Linkage disequilibrium as a mapping tool
- 12.5 Thresholds of significance are an important consideration in analysis of complex diseases
- 12.6 Strategies for complex disease mapping usually involve a combination of linkage and association techniques
- Further reading
- References
- Chapter 13. Genome projects
- 13.1 The history, organization, goals and value of the Human Genome Project
- 13.2 Genetic and physical mapping of the human genome
- 13.3 Model organism and other genome projects
- 13.4 Life in the post-genome (sequencing) era
- Further reading
- Electronic information on the Human Genome Project (and related projects)
- Electronic references
- References
- Chapter 14. Our place in the tree of life
- 14.1 Evolution of the mitochondrial genome and the origin of eukaryotic cells
- 14.2 Evolution of the eukaryotic nuclear genome: genome duplication and large-scale chromosomal alterations
- 14.3 Evolution of the human sex chromosomes
- 14.4 Evolution of human DNA sequence families and DNA organization
- 14.5 Evolution of gene structure
- 14.6 What makes us human? Comparative mammalian genome organization and the evolution of modern humans
- Further reading
- References
- Chapter 15. Identifying human disease genes
- 15.1 Principles and strategies in identifying disease genes
- 15.2 Position-independent strategies for identifying disease genes
- 15.3 In positional cloning, disease genes are identified using only knowledge of their approximate chromosomal location
- 15.4 Positional candidate strategies identify candidate genes by a combination of their map position and expression, function or homology
- 15.5 Confirming a candidate gene
- Further reading
- References
- Chapter 16. Molecular pathology
- 16.1 Introduction
- 16.2 There are rules for the nomenclature of mutations and databases of mutations
- 16.3 A first classification of mutations is into loss of function vs gain of function mutations
- 16.4 Loss of function mutations
- 16.5 Gain of function mutations
- 16.6 Molecular pathology: from gene to disease
- 16.7 Molecular pathology: from disease to gene
- 16.8 Molecular pathology of chromosomal disorders
- Further reading
- References
- Chapter 17. Genetic testing in individuals and populations
- Chapter 18. Cancer genetics
- 18.1 Cancer is the natural end-state of multicellular organisms
- 18.2 Mutations in cancer cells typically affect a limited number of pathways
- 18.3 Oncogenes
- 18.4 Activation of proto-oncogenes
- 18.5 Tumor suppressor genes
- 18.6 Control of the cell cycle
- 18.7 Control of the integrity of the genome
- 18.8 The multistep evolution of cancer
- Further reading
- References
- Chapter 19. Complex diseases: theory and results
- 19.1 Deciding whether a nonmendelian character is genetic: the role of family, twin and adoption studies
- 19.2 Polygenic theory of quantitative traits
- 19.3 Polygenic theory of discontinuous characters
- 19.4 Segregation analysis allows analysis of characters that are anywhere on the spectrum between purely mendelian and purely polygenic
- 19.5 Seven examples illustrate the varying success of genetic dissection of complex diseases
- 19.6 Applications of genetic insights into complex diseases
- Further reading
- References
- Chapter 20. Studying human gene structure, expression and function using cultured cells and
cell extracts
- 20.1 Gene structure and transcript mapping studies
- 20.2 Studying gene expression using cultured cells or cell extracts
- 20.3 Identifying regulatory sequences through the use of reporter genes and DNA-protein interactions
- 20.4 Investigating gene function by identifying interactions between a protein and other macromolecules
- Further reading
- Electronic references
- References
- Chapter 21. Genetic manipulation of animals
- 21.1 An overview of genetic manipulation of animals
- 21.2 The creation and applications of transgenic animals
- 21.3 Use of mouse embryonic stem cells in gene targeting and gene trapping
- 21.4 Creating animal models of disease using transgenic technology and gene targeting
- 21.5 Manipulating animals by somatic cell nuclear transfer
- Further reading
- References
- Chapter 22. Gene therapy and other molecular genetic-based therapeutic approaches
- 22.1 Principles of molecular genetic-based therapies and treatment with recombinant proteins or genetically engineered vaccines
- 22.2 The technology of classical gene therapy
- 22.3 Therapeutics based on targeted inhibition of gene expression and mutation correction in vivo
- 22.4 Gene therapy for inherited disorders
- 22.5 Gene therapy for neoplastic disorders and infectious disease
- 22.6 The ethics of human gene therapy
- Further reading
- References
- Glossary
- Appendix
- Abbreviations

Figure 16.8FGFR mutations
Three of the four highly homologous fibroblast growth factor receptors are shown. Each receptor tyrosine kinase has three immunoglobulin-like extracellular domains (held by S-S bridges), a transmembrane domain, and paired intracellular tyrosine kinase domains. Very specific missense mutations are associated with a series of skeletal dysplasias (achondroplasia A, hypochondroplasia H, thanatophoric dysplasia Types 1 and 2, T1 and T2) and craniosynostosis syndromes (Apert Ap, Crouzon C, Jackson-Weiss JW, Muencke M, Pfeiffer P). Other mutations can cause the Beare-Stevenson cutis gyrata skin disease (CA). Some mutations in the Ig3 domain of FGFR2 are associated in different families with Crouzon, Jackson-Weiss and Pfeiffer syndromes.
- Preface
- Before we start – genetic data and the Internet
- Chapter 1. DNA structure and gene expression
- Chapter 2. Chromosomes in cells
- Chapter 3. Genes in pedigrees
- Chapter 4. Cell-based DNA cloning
- Chapter 5. Nucleic acid hybridization assays
- 5.1 Preparation of nucleic acid probes
- 5.2 Principles of nucleic acid hybridization
- 5.3 Nucleic acid hybridization assays using cloned DNA probes to screen uncloned nucleic acid populations
- 5.4 Nucleic acid hybridization assays using cloned target DNA, and microarray hybridization technology
- Further reading
- References
- Chapter 6. PCR, DNA sequencing and in vitro mutagenesis
- Chapter 7. Organization of the human genome
- Chapter 8. Human gene expression
- 8.1 An overview of gene expression in human cells
- 8.2 Control of gene expression by binding of trans-acting protein factors to cis-acting regulatory sequences in DNA and RNA
- 8.3 Alternative transcription and processing of individual genes
- 8.4 Asymmetry as a means of establishing differential gene expression and DNA methylation as means of perpetuating differential expression
- 8.5 Long-range control of gene expression and imprinting
- 8.6 The unique organization and expression of Ig and TCR genes
- Further reading
- Electronic references (e-Refs)
- References
- Chapter 9. Instability of the human genome: mutation and DNA repair
- Chapter 10. Physical and transcript mapping
- Chapter 11. Genetic mapping of mendelian characters
- Chapter 12. Genetic mapping of complex characters
- 12.1 Parametric linkage analysis and complex diseases
- 12.2 Nonparametric linkage analysis does not require a genetic model
- 12.3 Association is in principle quite distinct from linkage, but where the family and the population merge, linkage and association merge
- 12.4 Linkage disequilibrium as a mapping tool
- 12.5 Thresholds of significance are an important consideration in analysis of complex diseases
- 12.6 Strategies for complex disease mapping usually involve a combination of linkage and association techniques
- Further reading
- References
- Chapter 13. Genome projects
- 13.1 The history, organization, goals and value of the Human Genome Project
- 13.2 Genetic and physical mapping of the human genome
- 13.3 Model organism and other genome projects
- 13.4 Life in the post-genome (sequencing) era
- Further reading
- Electronic information on the Human Genome Project (and related projects)
- Electronic references
- References
- Chapter 14. Our place in the tree of life
- 14.1 Evolution of the mitochondrial genome and the origin of eukaryotic cells
- 14.2 Evolution of the eukaryotic nuclear genome: genome duplication and large-scale chromosomal alterations
- 14.3 Evolution of the human sex chromosomes
- 14.4 Evolution of human DNA sequence families and DNA organization
- 14.5 Evolution of gene structure
- 14.6 What makes us human? Comparative mammalian genome organization and the evolution of modern humans
- Further reading
- References
- Chapter 15. Identifying human disease genes
- 15.1 Principles and strategies in identifying disease genes
- 15.2 Position-independent strategies for identifying disease genes
- 15.3 In positional cloning, disease genes are identified using only knowledge of their approximate chromosomal location
- 15.4 Positional candidate strategies identify candidate genes by a combination of their map position and expression, function or homology
- 15.5 Confirming a candidate gene
- Further reading
- References
- Chapter 16. Molecular pathology
- 16.1 Introduction
- 16.2 There are rules for the nomenclature of mutations and databases of mutations
- 16.3 A first classification of mutations is into loss of function vs gain of function mutations
- 16.4 Loss of function mutations
- 16.5 Gain of function mutations
- 16.6 Molecular pathology: from gene to disease
- 16.7 Molecular pathology: from disease to gene
- 16.8 Molecular pathology of chromosomal disorders
- Further reading
- References
- Chapter 17. Genetic testing in individuals and populations
- Chapter 18. Cancer genetics
- 18.1 Cancer is the natural end-state of multicellular organisms
- 18.2 Mutations in cancer cells typically affect a limited number of pathways
- 18.3 Oncogenes
- 18.4 Activation of proto-oncogenes
- 18.5 Tumor suppressor genes
- 18.6 Control of the cell cycle
- 18.7 Control of the integrity of the genome
- 18.8 The multistep evolution of cancer
- Further reading
- References
- Chapter 19. Complex diseases: theory and results
- 19.1 Deciding whether a nonmendelian character is genetic: the role of family, twin and adoption studies
- 19.2 Polygenic theory of quantitative traits
- 19.3 Polygenic theory of discontinuous characters
- 19.4 Segregation analysis allows analysis of characters that are anywhere on the spectrum between purely mendelian and purely polygenic
- 19.5 Seven examples illustrate the varying success of genetic dissection of complex diseases
- 19.6 Applications of genetic insights into complex diseases
- Further reading
- References
- Chapter 20. Studying human gene structure, expression and function using cultured cells and
cell extracts
- 20.1 Gene structure and transcript mapping studies
- 20.2 Studying gene expression using cultured cells or cell extracts
- 20.3 Identifying regulatory sequences through the use of reporter genes and DNA-protein interactions
- 20.4 Investigating gene function by identifying interactions between a protein and other macromolecules
- Further reading
- Electronic references
- References
- Chapter 21. Genetic manipulation of animals
- 21.1 An overview of genetic manipulation of animals
- 21.2 The creation and applications of transgenic animals
- 21.3 Use of mouse embryonic stem cells in gene targeting and gene trapping
- 21.4 Creating animal models of disease using transgenic technology and gene targeting
- 21.5 Manipulating animals by somatic cell nuclear transfer
- Further reading
- References
- Chapter 22. Gene therapy and other molecular genetic-based therapeutic approaches
- 22.1 Principles of molecular genetic-based therapies and treatment with recombinant proteins or genetically engineered vaccines
- 22.2 The technology of classical gene therapy
- 22.3 Therapeutics based on targeted inhibition of gene expression and mutation correction in vivo
- 22.4 Gene therapy for inherited disorders
- 22.5 Gene therapy for neoplastic disorders and infectious disease
- 22.6 The ethics of human gene therapy
- Further reading
- References
- Glossary
- Appendix
- Abbreviations
- Figure 16.8, FGFR mutations - Human Molecular GeneticsFigure 16.8, FGFR mutations - Human Molecular GeneticsBookself
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