Advances in statistical bioinformatics : models and integrative inference for high-throughput data / / edited by Kim-Anh Do, The University of Texas M.D. Anderson Cancer Center, Zhaohui Steven Qin, Emory University, Atlanta, GA, Marina Vannucci, Rice University, Houston, TX [[electronic resource]] |
Pubbl/distr/stampa | Cambridge : , : Cambridge University Press, , 2013 |
Descrizione fisica | 1 online resource (xv, 481 pages) : digital, PDF file(s) |
Disciplina | 572.80285 |
Soggetto topico |
Bioinformatics - Statistical methods
Biometry Genetics - Technique |
ISBN |
1-139-89118-9
1-107-24941-4 1-107-24858-2 1-299-70751-3 1-107-25107-9 1-107-25024-2 1-139-22644-4 1-107-24775-6 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
""Contents""; ""List of Contributors""; ""Preface""; ""1 An Introduction to Next-Generation Biological Platforms""; ""Virginia Mohlere, Wenting Wang, and Ganiraju Manyam""; ""1.1 Introduction""; ""1.2 The Biology of Gene Silencing""; ""1.2.1 DNA Methylation""; ""1.2.2 RNA Interference""; ""1.3 High-Throughput Profiling""; ""1.3.1 Molecular Inversion Probe Arrays""; ""1.3.2 Array Comparative Genomic Hybridization (aCGH)""; ""1.3.3 Genome-Wide Association Studies""; ""1.3.4 Reverse-Phase Protein Array""; ""1.4 Next-Generation Sequencing""; ""1.4.1 Whole-Genome and Whole-Exome Sequencing""
""1.4.2 ChIP-Seq""""1.4.3 RNA-Seq""; ""1.4.4 BS-seq""; ""1.5 NGS Data Management and Analysis""; ""1.6 Platform Integration""; ""Acknowledgments""; ""References""; ""References""; ""2 An Introduction to The Cancer Genome Atlas""; ""Bradley M. Broom and Rehan Akbani""; ""2.1 Introduction""; ""2.2 History and Goals of the TCGA Project""; ""2.3 Sample Collection and Processing""; ""2.3.1 Step 1: Tissue Collection""; ""2.3.2 Step 2: Quality Control and DNA/RNA Extraction""; ""2.3.3 Step 3: Molecular Profiling and Sequencing""; ""2.3.4 Step 4: Data Collection and Public Distribution"" ""2.3.5 Step 5: Data Analysis""""2.4 Data Processing, Storage, and Access""; ""2.4.1 TCGA Barcodes and UUIDs""; ""2.4.2 The Data Coordinating Center""; ""2.4.3 Data Access Matrix""; ""2.4.4 Bulk Download""; ""2.4.5 HTTP""; ""2.4.6 CGHub""; ""2.4.7 Sample and Data Relationship Format (SDRF) and Investigation Description Format (IDF) Files""; ""2.4.8 File Format""; ""2.4.9 Version""; ""2.5 Tools for Visualizing and Analyzing TCGA Data""; ""2.5.1 cBio Cancer Genomics Portal""; ""2.5.2 MBatch Portal""; ""2.5.3 Next-Generation Clustered Heat Maps""; ""2.5.4 Regulome Explorer"" ""2.5.5 Integrative Genome Viewer""""2.5.6 Cancer Genomics Browser""; ""2.6 Summary""; ""Acknowledgments""; ""References""; ""References""; ""3 DNA Variant Calling in Targeted Sequencing Data""; ""Wenyi Wang, Yu Fan, and Terence P. Speed""; ""3.1 Introduction""; ""3.2 Background""; ""3.2.1 Single-Nucleotide Variation""; ""3.2.2 Long Padlock Probes""; ""3.2.3 Array-Based Resequencing""; ""3.3 Sequence Robust Multiarray Analysis""; ""3.3.1 Quality Control""; ""3.3.2 Variant Calling""; ""3.4 Application of SRMA""; ""3.4.1 Candidate Gene Study for Mitochondrial Diseases"" ""3.4.2 Validation Results""""3.4.3 Biological Findings""; ""3.5 Conclusion""; ""Appendix""; ""References""; ""References""; ""4 Statistical Analysis of Mapped Reads from mRNA-Seq Data""; ""Ernest Turro and Alex Lewin""; ""4.1 Background""; ""4.1.1 RNA Biology""; ""4.1.2 RNA Technology""; ""4.2 Mapping and Assembly Strategies""; ""4.2.1 De Novo Assembly of the Transcriptome""; ""4.2.2 Genome-Guided Assembly of the Transcriptome""; ""4.2.3 Alignment to a Reference Transcriptome""; ""4.3 Modeling Expression Levels""; ""4.3.1 Poisson Model for Expression Quantification""; ""4.4 Normalization"" ""4.4.1 RPKM Normalization"" |
Record Nr. | UNINA-9910464935503321 |
Cambridge : , : Cambridge University Press, , 2013 | ||
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Lo trovi qui: Univ. Federico II | ||
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Advances in statistical bioinformatics : models and integrative inference for high-throughput data / / edited by Kim-Anh Do, The University of Texas M.D. Anderson Cancer Center, Zhaohui Steven Qin, Emory University, Atlanta, GA, Marina Vannucci, Rice University, Houston, TX [[electronic resource]] |
Pubbl/distr/stampa | Cambridge : , : Cambridge University Press, , 2013 |
Descrizione fisica | 1 online resource (xv, 481 pages) : digital, PDF file(s) |
Disciplina | 572.80285 |
Soggetto topico |
Bioinformatics - Statistical methods
Biometry Genetics - Technique |
ISBN |
1-139-89118-9
1-107-24941-4 1-107-24858-2 1-299-70751-3 1-107-25107-9 1-107-25024-2 1-139-22644-4 1-107-24775-6 |
Classificazione | MED090000 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
""Contents""; ""List of Contributors""; ""Preface""; ""1 An Introduction to Next-Generation Biological Platforms""; ""Virginia Mohlere, Wenting Wang, and Ganiraju Manyam""; ""1.1 Introduction""; ""1.2 The Biology of Gene Silencing""; ""1.2.1 DNA Methylation""; ""1.2.2 RNA Interference""; ""1.3 High-Throughput Profiling""; ""1.3.1 Molecular Inversion Probe Arrays""; ""1.3.2 Array Comparative Genomic Hybridization (aCGH)""; ""1.3.3 Genome-Wide Association Studies""; ""1.3.4 Reverse-Phase Protein Array""; ""1.4 Next-Generation Sequencing""; ""1.4.1 Whole-Genome and Whole-Exome Sequencing""
""1.4.2 ChIP-Seq""""1.4.3 RNA-Seq""; ""1.4.4 BS-seq""; ""1.5 NGS Data Management and Analysis""; ""1.6 Platform Integration""; ""Acknowledgments""; ""References""; ""References""; ""2 An Introduction to The Cancer Genome Atlas""; ""Bradley M. Broom and Rehan Akbani""; ""2.1 Introduction""; ""2.2 History and Goals of the TCGA Project""; ""2.3 Sample Collection and Processing""; ""2.3.1 Step 1: Tissue Collection""; ""2.3.2 Step 2: Quality Control and DNA/RNA Extraction""; ""2.3.3 Step 3: Molecular Profiling and Sequencing""; ""2.3.4 Step 4: Data Collection and Public Distribution"" ""2.3.5 Step 5: Data Analysis""""2.4 Data Processing, Storage, and Access""; ""2.4.1 TCGA Barcodes and UUIDs""; ""2.4.2 The Data Coordinating Center""; ""2.4.3 Data Access Matrix""; ""2.4.4 Bulk Download""; ""2.4.5 HTTP""; ""2.4.6 CGHub""; ""2.4.7 Sample and Data Relationship Format (SDRF) and Investigation Description Format (IDF) Files""; ""2.4.8 File Format""; ""2.4.9 Version""; ""2.5 Tools for Visualizing and Analyzing TCGA Data""; ""2.5.1 cBio Cancer Genomics Portal""; ""2.5.2 MBatch Portal""; ""2.5.3 Next-Generation Clustered Heat Maps""; ""2.5.4 Regulome Explorer"" ""2.5.5 Integrative Genome Viewer""""2.5.6 Cancer Genomics Browser""; ""2.6 Summary""; ""Acknowledgments""; ""References""; ""References""; ""3 DNA Variant Calling in Targeted Sequencing Data""; ""Wenyi Wang, Yu Fan, and Terence P. Speed""; ""3.1 Introduction""; ""3.2 Background""; ""3.2.1 Single-Nucleotide Variation""; ""3.2.2 Long Padlock Probes""; ""3.2.3 Array-Based Resequencing""; ""3.3 Sequence Robust Multiarray Analysis""; ""3.3.1 Quality Control""; ""3.3.2 Variant Calling""; ""3.4 Application of SRMA""; ""3.4.1 Candidate Gene Study for Mitochondrial Diseases"" ""3.4.2 Validation Results""""3.4.3 Biological Findings""; ""3.5 Conclusion""; ""Appendix""; ""References""; ""References""; ""4 Statistical Analysis of Mapped Reads from mRNA-Seq Data""; ""Ernest Turro and Alex Lewin""; ""4.1 Background""; ""4.1.1 RNA Biology""; ""4.1.2 RNA Technology""; ""4.2 Mapping and Assembly Strategies""; ""4.2.1 De Novo Assembly of the Transcriptome""; ""4.2.2 Genome-Guided Assembly of the Transcriptome""; ""4.2.3 Alignment to a Reference Transcriptome""; ""4.3 Modeling Expression Levels""; ""4.3.1 Poisson Model for Expression Quantification""; ""4.4 Normalization"" ""4.4.1 RPKM Normalization"" |
Record Nr. | UNINA-9910789313903321 |
Cambridge : , : Cambridge University Press, , 2013 | ||
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Lo trovi qui: Univ. Federico II | ||
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Advances in statistical bioinformatics : models and integrative inference for high-throughput data / / edited by Kim-Anh Do, The University of Texas M.D. Anderson Cancer Center, Zhaohui Steven Qin, Emory University, Atlanta, GA, Marina Vannucci, Rice University, Houston, TX [[electronic resource]] |
Pubbl/distr/stampa | Cambridge : , : Cambridge University Press, , 2013 |
Descrizione fisica | 1 online resource (xv, 481 pages) : digital, PDF file(s) |
Disciplina | 572.80285 |
Soggetto topico |
Bioinformatics - Statistical methods
Biometry Genetics - Technique |
ISBN |
1-139-89118-9
1-107-24941-4 1-107-24858-2 1-299-70751-3 1-107-25107-9 1-107-25024-2 1-139-22644-4 1-107-24775-6 |
Classificazione | MED090000 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
""Contents""; ""List of Contributors""; ""Preface""; ""1 An Introduction to Next-Generation Biological Platforms""; ""Virginia Mohlere, Wenting Wang, and Ganiraju Manyam""; ""1.1 Introduction""; ""1.2 The Biology of Gene Silencing""; ""1.2.1 DNA Methylation""; ""1.2.2 RNA Interference""; ""1.3 High-Throughput Profiling""; ""1.3.1 Molecular Inversion Probe Arrays""; ""1.3.2 Array Comparative Genomic Hybridization (aCGH)""; ""1.3.3 Genome-Wide Association Studies""; ""1.3.4 Reverse-Phase Protein Array""; ""1.4 Next-Generation Sequencing""; ""1.4.1 Whole-Genome and Whole-Exome Sequencing""
""1.4.2 ChIP-Seq""""1.4.3 RNA-Seq""; ""1.4.4 BS-seq""; ""1.5 NGS Data Management and Analysis""; ""1.6 Platform Integration""; ""Acknowledgments""; ""References""; ""References""; ""2 An Introduction to The Cancer Genome Atlas""; ""Bradley M. Broom and Rehan Akbani""; ""2.1 Introduction""; ""2.2 History and Goals of the TCGA Project""; ""2.3 Sample Collection and Processing""; ""2.3.1 Step 1: Tissue Collection""; ""2.3.2 Step 2: Quality Control and DNA/RNA Extraction""; ""2.3.3 Step 3: Molecular Profiling and Sequencing""; ""2.3.4 Step 4: Data Collection and Public Distribution"" ""2.3.5 Step 5: Data Analysis""""2.4 Data Processing, Storage, and Access""; ""2.4.1 TCGA Barcodes and UUIDs""; ""2.4.2 The Data Coordinating Center""; ""2.4.3 Data Access Matrix""; ""2.4.4 Bulk Download""; ""2.4.5 HTTP""; ""2.4.6 CGHub""; ""2.4.7 Sample and Data Relationship Format (SDRF) and Investigation Description Format (IDF) Files""; ""2.4.8 File Format""; ""2.4.9 Version""; ""2.5 Tools for Visualizing and Analyzing TCGA Data""; ""2.5.1 cBio Cancer Genomics Portal""; ""2.5.2 MBatch Portal""; ""2.5.3 Next-Generation Clustered Heat Maps""; ""2.5.4 Regulome Explorer"" ""2.5.5 Integrative Genome Viewer""""2.5.6 Cancer Genomics Browser""; ""2.6 Summary""; ""Acknowledgments""; ""References""; ""References""; ""3 DNA Variant Calling in Targeted Sequencing Data""; ""Wenyi Wang, Yu Fan, and Terence P. Speed""; ""3.1 Introduction""; ""3.2 Background""; ""3.2.1 Single-Nucleotide Variation""; ""3.2.2 Long Padlock Probes""; ""3.2.3 Array-Based Resequencing""; ""3.3 Sequence Robust Multiarray Analysis""; ""3.3.1 Quality Control""; ""3.3.2 Variant Calling""; ""3.4 Application of SRMA""; ""3.4.1 Candidate Gene Study for Mitochondrial Diseases"" ""3.4.2 Validation Results""""3.4.3 Biological Findings""; ""3.5 Conclusion""; ""Appendix""; ""References""; ""References""; ""4 Statistical Analysis of Mapped Reads from mRNA-Seq Data""; ""Ernest Turro and Alex Lewin""; ""4.1 Background""; ""4.1.1 RNA Biology""; ""4.1.2 RNA Technology""; ""4.2 Mapping and Assembly Strategies""; ""4.2.1 De Novo Assembly of the Transcriptome""; ""4.2.2 Genome-Guided Assembly of the Transcriptome""; ""4.2.3 Alignment to a Reference Transcriptome""; ""4.3 Modeling Expression Levels""; ""4.3.1 Poisson Model for Expression Quantification""; ""4.4 Normalization"" ""4.4.1 RPKM Normalization"" |
Record Nr. | UNINA-9910810575303321 |
Cambridge : , : Cambridge University Press, , 2013 | ||
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Lo trovi qui: Univ. Federico II | ||
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Cellular oncology |
Pubbl/distr/stampa | Amsterdam, : IOS Press, ©2004- |
Disciplina | 616.994 |
Soggetto topico |
Oncology
Cancer - Cytopathology Cytology - Technique Genetics - Technique Cancer Cells - pathology Cell Transformation, Neoplastic Cytological Techniques Genetic Techniques Medical Oncology Neoplasms Cancérologie Cytologie - Technique Cancer - Cytopathologie Génétique - Technique |
Soggetto genere / forma |
Periodical
periodicals. Periodicals. Périodiques. |
ISSN | 1875-8606 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Periodico |
Lingua di pubblicazione | eng |
Record Nr. | UNISA-996203540603316 |
Amsterdam, : IOS Press, ©2004- | ||
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Lo trovi qui: Univ. di Salerno | ||
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Cellular oncology |
Pubbl/distr/stampa | Amsterdam, : IOS Press, ©2004- |
Disciplina | 616.994 |
Soggetto topico |
Oncology
Cancer - Cytopathology Cytology - Technique Genetics - Technique Cancer Cells - pathology Cell Transformation, Neoplastic Cytological Techniques Genetic Techniques Medical Oncology Neoplasms Cancérologie Cytologie - Technique Cancer - Cytopathologie Génétique - Technique |
Soggetto genere / forma |
Periodical
periodicals. Periodicals. Périodiques. |
ISSN | 1875-8606 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Periodico |
Lingua di pubblicazione | eng |
Record Nr. | UNINA-9910143634503321 |
Amsterdam, : IOS Press, ©2004- | ||
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Lo trovi qui: Univ. Federico II | ||
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DNA |
Pubbl/distr/stampa | New Rochelle, New York, : Mary Ann Liebert, ©1981-1989 |
Disciplina |
572.8
574.87/3282/05 |
Soggetto topico |
DNA
Nucleic acids Genetic engineering - Technique Recombinant DNA Genetics - Technique DNA, Recombinant Genetic Techniques ADN recombinant ADN Génétique - Technique Celbiologie |
Soggetto genere / forma |
Periodical
Periodicals. |
ISSN | 2331-4672 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Periodico |
Lingua di pubblicazione | eng |
Altri titoli varianti |
D.N.A.
DNA -- a journal of molecular and cellular biology |
Record Nr. | UNINA-9910388593803321 |
New Rochelle, New York, : Mary Ann Liebert, ©1981-1989 | ||
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Lo trovi qui: Univ. Federico II | ||
|
DNA |
Pubbl/distr/stampa | New Rochelle, New York, : Mary Ann Liebert, ©1981-1989 |
Disciplina |
572.8
574.87/3282/05 |
Soggetto topico |
DNA
Nucleic acids Genetic engineering - Technique Recombinant DNA Genetics - Technique DNA, Recombinant Genetic Techniques ADN recombinant ADN Génétique - Technique Celbiologie |
Soggetto genere / forma |
Periodical
Periodicals. |
ISSN | 2331-4672 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Periodico |
Lingua di pubblicazione | eng |
Altri titoli varianti |
D.N.A.
DNA -- a journal of molecular and cellular biology |
Record Nr. | UNISA-996418329303316 |
New Rochelle, New York, : Mary Ann Liebert, ©1981-1989 | ||
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Lo trovi qui: Univ. di Salerno | ||
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DNA and cell biology |
Pubbl/distr/stampa | [Larchmont, N.Y.], : Mary Ann Liebert, 1990- |
Disciplina | 574 |
Soggetto topico |
DNA
Cytology Genes Genetics - Technique Nucleic acids Recombinant DNA Genetic Techniques Nucleic Acids ADN recombinant ADN Cytologie Gènes Génétique - Technique Acides nucléiques Histology Zeitschrift Celbiologie DNS |
Soggetto genere / forma |
Periodical
Periodicals. |
ISSN | 1557-7430 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Periodico |
Lingua di pubblicazione | eng |
Record Nr. | UNISA-996213086803316 |
[Larchmont, N.Y.], : Mary Ann Liebert, 1990- | ||
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Lo trovi qui: Univ. di Salerno | ||
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DNA and cell biology |
Pubbl/distr/stampa | [Larchmont, N.Y.], : Mary Ann Liebert, 1990- |
Disciplina | 574 |
Soggetto topico |
DNA
Cytology Genes Genetics - Technique Nucleic acids Recombinant DNA Genetic Techniques Nucleic Acids ADN recombinant ADN Cytologie Gènes Génétique - Technique Acides nucléiques Histology Zeitschrift Celbiologie DNS |
Soggetto genere / forma |
Periodical
Periodicals. |
ISSN | 1557-7430 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Periodico |
Lingua di pubblicazione | eng |
Record Nr. | UNINA-9910137791603321 |
[Larchmont, N.Y.], : Mary Ann Liebert, 1990- | ||
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Lo trovi qui: Univ. Federico II | ||
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Genetic analysis [[electronic resource] ] : principles, scope, and objectives / / John R.S. Fincham |
Autore | Fincham J. R. S |
Pubbl/distr/stampa | Oxford ; ; Boston, : Blackwell Scientific Publications, 1994 |
Descrizione fisica | 1 online resource (241 p.) |
Disciplina | 574.87/322 |
Soggetto topico |
Genetics - Technique
Nucleotide sequence Gene mapping |
ISBN |
1-282-18905-0
9786612189050 1-4443-1383-5 1-4443-1382-7 |
Formato | Materiale a stampa ![]() |
Livello bibliografico | Monografia |
Lingua di pubblicazione | eng |
Nota di contenuto |
GENETIC ANALYSIS; CONTENTS; PREFACE; INTRODUCTION: THE EXPANDING SCOPE OF GENETICS; 1: DISSECTING THE GENOME USING NATURAL GENETIC SYSTEMS; The eukaryotic system; Eukaryotes distinguished from prokaryotes; Mitosis and chromosome structure; Alternation of haploid and diploid phases in the sexual cycle; Meiosis and the rules of classical genetics; Meiosis; Single-factor genetic ratios and their explanation; Independent assortment of different allele-pairs; Testing data for fit to theoretical ratios; Linkage groups and the nature of crossovers; Map units and map distance
Placing Linked genes in sequenceDistinguishing between independent assorment and distant linkage; Mapping centromeres using tetrads; Sex linkage; Segregation and linkage in human genetics; Assigning linkage groups to chromosomes; Genetic analysis of bacteria and bacteriophage; Three modes of gene transfer in bacteria; Time-of-entry mapping in E. coli; Analogy with sexual recombination and segregation; Stable partial diploids - F' plasmids; Bacteriophage lambda - a virus in the chromosome; Bacteriophage T4 - a model recombinational system; Eukaryotic organelle genetics Exceptions to the rule of equal results from reciprocal crossesChloroplast variants; Mitochondrial variants; Summary and perspective; Further reading; References; 2: FROM MUTATIONS TO GENES; Defining the gene by mutation and complementation; What is it that the markers mark?; The collection of mutants; Sorting of mutants into complementation groups; An interim definition of the gene; Mapping within the gene; The detection of recombination within genes; Mapping by reference to flanking markers; Recombination frequency; Deletion mapping; The determination by genes of protein structure Colinearity of the gene and its encoded protein productBiochemistry of polypeptide synthesis; Not all genes encode proteins; Conclusions; References; 3: THE GENE AS DNA SEQUENCE; Characterization of DNA fragments; Restriction endonucleases; Separating aod sizing DNA fragments; Probing for specific sequences; Making restriction-site maps; Cloning and cloning vectors; Making recombinant DNA molecules; Escherichia coli plasmid vectors; Yeast 2-um plasmid and shuttle vectors; Lambda (l) bacteriophage and cosmid vectors; Yeast artificial chromosomes (YACs) Screening DNA libraries for functional genesGenomic libraries and cDNA libraries; Gene identification by complementation of mutants; Screening gene libraries with DNA probes; Designing gene-specific probes; Use of cDNA probes; Screening for gene expression; Probing across species or group boundaries; Positional cloning; Confirming the identity of cloned sequences; DNA sequence and open reading frames; Using the clone to disrupt the corresponding gene; Hybridization back to chromosomes; Simultaneous mutagenesis and gene tagging; The principle; Transposon tags; Conclusion; References 4: THE EVOLVING CONCEPT OF THE GENE |
Record Nr. | UNISA-996206293403316 |
Fincham J. R. S
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Oxford ; ; Boston, : Blackwell Scientific Publications, 1994 | ||
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Lo trovi qui: Univ. di Salerno | ||
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