Genomics Protocols

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Protocols in Advanced Genomics and Allied Techniques

Aruna Pal
Protocols in Advanced Genomics and Allied Techniques Book PDF

Author : Aruna Pal
Publisher : Springer Nature
Page : 762 pages
File Size : 53,5 Mb
Release : 2021-11-14
Category : Science
ISBN : 9781071618189

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Protocols in Advanced Genomics and Allied Techniques by Aruna Pal Pdf

This laboratory manual includes the latest tools and techniques involved in genomic research. It starts with an introductory chapter on genomics and the various tools and applications involved. The initial chapters present protocols for basic techniques such as DNA isolation, electrophoresis, PCR, cDNA synthesis etc. The book then goes on to describe more advanced techniques such as next-generation sequencing, exome sequencing, use of RNAi, RNAseq, genome editing, single cell genomics etc. Each topic includes a brief description, information on the principles involved, materials & methods, protocol, and expected results, with diagrams and graphs. All protocols are presented in a very lucid and precise way, to make it easy for readers to follow and replicate them.

Genomics Protocols

Michael P. Starkey,Ramnath Elaswarapu
Genomics Protocols Book PDF

Author : Michael P. Starkey,Ramnath Elaswarapu
Publisher : Springer Science & Business Media
Page : 537 pages
File Size : 48,8 Mb
Release : 2008-02-03
Category : Medical
ISBN : 9781592592357

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Genomics Protocols by Michael P. Starkey,Ramnath Elaswarapu Pdf

We must unashamedly admit that a large part of the motivation for editing Genomics Protocols was selfish. The possibility of assembling in a single volume a unique and comprehensive collection of complete protocols, relevant to our work and the work of our colleagues, was too good an opportunity to miss. We are pleased to report, however, that the outcome is something of use not only to those who are experienced practitioners in the genomics field, but is also valuable to the larger community of researchers who have recognized the potential of genomics research and may themselves be beginning to explore the technologies involved. Some of the techniques described in Genomics Protocols are clearly not restricted to the genomics field; indeed, a prerequisite for many procedures in this discipline is that they require an extremely high throughput, beyond the scope of the average investigator. However, what we have endeavored here to achieve is both to compile a collection of procedures concerned with geno- scale investigations and to incorporate the key components of “bottom-up” and “top-down” approaches to gene finding. The technologies described extend from those traditionally recognized as coming under the genomics umbrella, touch on proteomics (the study of the expressed protein complement of the genome), through to early therapeutic approaches utilizing the potential of genome programs via gene therapy (Chapters 27–30).

Comparative Genomics

Joao Carlos Setubal,Peter F. Stadler,Jens Stoye
Comparative Genomics Book PDF

Author : Joao Carlos Setubal,Peter F. Stadler,Jens Stoye
Publisher : Humana
Page : 0 pages
File Size : 49,7 Mb
Release : 2024-06-22
Category : Science
ISBN : 1071638378

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Comparative Genomics by Joao Carlos Setubal,Peter F. Stadler,Jens Stoye Pdf

This second edition provides new and updated chapters covering computational and mathematical techniques and concepts related to the field of comparative genomics. The topics covered in the chapters range from those that address general techniques and concepts that apply to all organisms to others that are specialized and apply to specific biological systems such as viruses, bacteria, nematodes, and insects. Well-known comparative genomics web-based platforms are also covered in specific chapters. Written in the highly successful Methods in Molecular Biology series format, many chapters include introductions to their respective topics and step-by-step comparison procedures, demonstrated on actual sets of genome sequences. Authoritative and cutting-edge, Comparative Genomics: Methods and Protocols, Second Edition aims to ensure successful results in the further study of this vital field.

Statistical Genomics

Ewy Mathé,Sean Davis
Statistical Genomics Book PDF

Author : Ewy Mathé,Sean Davis
Publisher : Humana
Page : 0 pages
File Size : 54,9 Mb
Release : 2016-03-24
Category : Medical
ISBN : 1493935763

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Statistical Genomics by Ewy Mathé,Sean Davis Pdf

This volume expands on statistical analysis of genomic data by discussing cross-cutting groundwork material, public data repositories, common applications, and representative tools for operating on genomic data. Statistical Genomics: Methods and Protocols is divided into four sections. The first section discusses overview material and resources that can be applied across topics mentioned throughout the book. The second section covers prominent public repositories for genomic data. The third section presents several different biological applications of statistical genomics, and the fourth section highlights software tools that can be used to facilitate ad-hoc analysis and data integration. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, step-by-step, readily reproducible analysis protocols, and tips on troubleshooting and avoiding known pitfalls. Through and practical, Statistical Genomics: Methods and Protocols, explores a range of both applications and tools and is ideal for anyone interested in the statistical analysis of genomic data.

Plant Functional Genomics

Erich Grotewold
Plant Functional Genomics Book PDF

Author : Erich Grotewold
Publisher : Springer Science & Business Media
Page : 443 pages
File Size : 48,6 Mb
Release : 2008-02-03
Category : Science
ISBN : 9781592594139

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Plant Functional Genomics by Erich Grotewold Pdf

Functional genomics is a young discipline whose origin can be traced back to the late 1980s and early 1990s, when molecular tools became available to determine the cellular functions of genes. Today, functional genomics is p- ceived as the analysis, often large-scale, that bridges the structure and organi- tion of genomes and the assessment of gene function. The completion in 2000 of the genome sequence of Arabidopsis thaliana has created a number of new and exciting challenges in plant functional genomics. The immediate task for the plant biology community is to establish the functions of the approximately 25,000 genes present in this model plant. One major issue that will remain even after this formidable task is c- pleted is establishing to what degree our understanding of the genome of one model organism, such as the dicot Arabidopsis, provides insight into the or- nization and function of genes in other plants. The genome sequence of rice, completed in 2002 as a result of the synergistic interaction of the private and public sectors, promises to significantly enrich our knowledge of the general organization of plant genomes. However, the tools available to investigate gene function in rice are lagging behind those offered by other model plant systems. Approaches available to investigate gene function become even more limited for plants other than the model systems of Arabidopsis, rice, and maize.

Parasite Genomics Protocols

Sara E. Melville
Parasite Genomics Protocols Book PDF

Author : Sara E. Melville
Publisher : Springer Science & Business Media
Page : 454 pages
File Size : 45,7 Mb
Release : 2008-02-02
Category : Science
ISBN : 9781592597932

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Parasite Genomics Protocols by Sara E. Melville Pdf

Parasitic diseases remain a major health problem throughout the world, for both humans and animals. For many of us, our technologically advanced lifestyle has decreased the prevalence and transmission of parasitic diseases, but for the majority of the world’s population, they are ever present in homes, domestic animals, food, or the environment. The study of parasites and parasitic disease has a long and distinguished history. In some cases, it has been driven by the great importance of the presence of the parasite to the community, for example, those that affect our livestock. In other cases, it is clear that applied research has suffered for lack of funding because the parasite affects people with few resources, such as the rural poor in resource-poor countries. These instances include the so-called “neglected diseases,” as defined by the World Health Organization (WHO). Parasites have complicated life cycles, and a thorough understanding of the unique characteristics of a particular parasite species is vital in attempts to avoid, prevent, or cure infection or to alleviate symptoms. Of course, the biological characteristics that each parasite has developed to aid survival and transmission, to avoid destruction by the immune system, and to adapt to a changing environment are of lasting fascination to basic biologists as well. The elegance of these biological systems has ensured that the study of protozoan and metazoan parasites also remains an active field of research in countries where the diseases are not a threat to the population.

Cereal Genomics

Robert J. Henry,Agnelo Furtado
Cereal Genomics Book PDF

Author : Robert J. Henry,Agnelo Furtado
Publisher : Humana
Page : 0 pages
File Size : 43,6 Mb
Release : 2013-11-16
Category : Science
ISBN : 1627037144

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Cereal Genomics by Robert J. Henry,Agnelo Furtado Pdf

​In Cereal Genomics: Methods and Protocols, expert researchers provides modern protocols for the analysis and manipulation of cereal genomes. Techniques for isolation and analysis of DNA and RNA from both the vegetative tissues and from the more challenging seeds of cereals are described. Tools for the isolation, characterization and functional analysis of cereal genes and their transcripts are detailed. Methods for molecular screening of cereals and for their genetic transformation are also covered. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Cereal Genomics: Methods and Protocols provides a comprehensive resource for those studying cereal genomes.

PCR Applications

Michael A. Innis,David H. Gelfand,John J. Sninsky
PCR Applications Book PDF

Author : Michael A. Innis,David H. Gelfand,John J. Sninsky
Publisher : Academic Press
Page : 566 pages
File Size : 53,6 Mb
Release : 1999-05-11
Category : Science
ISBN : 9780080919638

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PCR Applications by Michael A. Innis,David H. Gelfand,John J. Sninsky Pdf

PCR is the most powerful technique currently used in molecular biology. It enables the scientist to quickly replicate DNA and RNA on the benchtop. From its discovery in the early 80's, PCR has blossomed into a method that enables everything from ready mutation of DNA/RNA to speedy analysis of tens of thousands of nucleotide sequences daily. PCR Applications examines the latest developments in this field. It is the third book in the series, building on the previous publications PCR Protocols and PCR Strategies. The manual discusses techniques that focus on gene discovery, genomics, and DNA array technology, which are contributing factors to the now-occurring bioinformatics boom. Key Features * Focuses on gene discovery, genomics, and DNA array technology * Covers quantitative PCR techniques, including the use of standards and kinetic analysis includes statistical refinement of primer design parameters * Ilustrates techniques used in microscopic tissue samples, such as single cell PCR, whole cell PCR, laser capture microdissection, and in situ PCR Entries provide information on: * Nomenclature * Expression * Sequence analysis * Structure and function * Electrophysiology * Parmacology * Information retrieval

Insect Genomics

Susan J. Brown,Michael E. Pfrender
Insect Genomics Book PDF

Author : Susan J. Brown,Michael E. Pfrender
Publisher : Humana
Page : 237 pages
File Size : 42,8 Mb
Release : 2019-12-10
Category : Medical
ISBN : 1493993895

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Insect Genomics by Susan J. Brown,Michael E. Pfrender Pdf

This volume focuses on the latest methods used to sequence, assemble, and analyze insect genomes. The collection of protocols in this book provides an introduction to the workflows and bioinformatics tools available for researchers. The chapters cover a range of useful topics such as determining genome size by flow cytometry; High Molecular Weight DNA extraction; improvements to a genome assembly provided by long-range sequencing approaches; assessments of orthology and single-copy genes at different phylogenetic levels; detecting regulatory regions with FAIRE, RAMPAGE, and computational analysis of cis-regulatory modules in insects; bioinformatics analysis of epigenetic modifications, high-throughput scanning of insect genomes (TEEseq) for the presence of endosymbionts, and leveraging genome sequence information to design RNAi strategies. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Insect Genomics: Methods and Protocols is a valuable resource for graduate students, postdocs, and novice research scientists who are interested in learning more about this developing field.

Plant Genomics Databases

Aalt D. J. van Dijk
Plant Genomics Databases Book PDF

Author : Aalt D. J. van Dijk
Publisher : Unknown
Page : 336 pages
File Size : 55,5 Mb
Release : 2017
Category : Botany
ISBN : 1493966588

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Plant Genomics Databases by Aalt D. J. van Dijk Pdf

This volume introduces databases containing the results from the recent revolution in sequencing technologies. Chapters in Plant Genomics Databases: Methods and Protocols describe database content, as well as typical use-cases. Some chapters explore databases that primarily present genome sequences focusing on one or a few related species, while others include additional datatypes and/or data from various plant species. 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 tips on troubleshooting and avoiding known pitfalls. Cutting-edge and comprehensive, Plant Genomics Databases: Methods and Protocols is a valuable resource for providing clear guidance in accessing an important collection of plant databases that can be used to add biological value to genomic data.

Cancer Genomics and Proteomics

Narendra Wajapeyee
Cancer Genomics and Proteomics Book PDF

Author : Narendra Wajapeyee
Publisher : Humana Press
Page : 0 pages
File Size : 44,5 Mb
Release : 2014-07-17
Category : Medical
ISBN : 1493909916

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Cancer Genomics and Proteomics by Narendra Wajapeyee Pdf

Cancer Genomics and Proteomics: Methods and Protocols, Second Edition includes methods for the analyses of cancer genome and proteome that have illuminated us about the changes in cancer cells. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Cancer Genomics and Proteomics: Methods and Protocols, Second Edition seeks to aid scientists in the further study into various aspects of tumor initiation and progression.

Yeast Functional Genomics

Frédéric Devaux
Yeast Functional Genomics Book PDF

Author : Frédéric Devaux
Publisher : Humana
Page : 0 pages
File Size : 44,5 Mb
Release : 2015-10-20
Category : Science
ISBN : 1493930788

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Yeast Functional Genomics by Frédéric Devaux Pdf

This volume provides a collection of protocols for the study of DNA-DNA contact maps, replication profiles, transcription rates, RNA secondary structures, protein-RNA interactions, ribosome profiling and quantitative proteomes and metabolomes. Written for the Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Yeast Functional Genomics: Methods and Protocols aims to ensure successful results in the further study of this vital field.

Cereal Genomics

Luis M. Vaschetto
Cereal Genomics Book PDF

Author : Luis M. Vaschetto
Publisher : Humana
Page : 0 pages
File Size : 43,7 Mb
Release : 2019-09-20
Category : Science
ISBN : 1493998641

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Cereal Genomics by Luis M. Vaschetto Pdf

The objective of this volume is to detail current technologies associated with cereal genomics, providing a valuable resource for researchers working in breeding and molecular crop improvement programs. Chapters guide readers through high-throughput DNA extraction protocols, crop genetic resources, meta-Quantitative Trait Loci (QTL) analysis, association mapping, next-sequencing generation, transposable element-associated variation, transcriptomics analysis, epigenetic variation, identification of imprinted genes, noncoding RNAs (circular RNAs), genome editing technologies, and post-translational protein phosphorylation.Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Cereal Genomics: Methods and Protocols to ensure successful results in the further study of this vital field.

Plant Genomics

Daryl J. Somers,Peter Langridge,J.P. Gustafson
Plant Genomics Book PDF

Author : Daryl J. Somers,Peter Langridge,J.P. Gustafson
Publisher : Humana Press
Page : 0 pages
File Size : 43,8 Mb
Release : 2011-01-20
Category : Science
ISBN : 1617378739

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Plant Genomics by Daryl J. Somers,Peter Langridge,J.P. Gustafson Pdf

Plant genomics is a growing and constantly evolving field of study, one which has gained much ground in past years through the development of advanced research and data management tools. In Plant Genomics: Methods and Protocols, expert researchers explore the current issues and methodologies of this expanding field, specifically addressing areas of gene discovery and the functional analysis of genes with a focus on the primary tools and sub-disciplines of genetic mapping, mRNA, protein and metabolite profiling. Chapters employ exciting new methods to investigate molecular plant breeding technology and gene functional analysis via transformation, mutation, protein function, and gene expression. Composed in the highly successful Methods in Molecular Biology series format, each chapter contains a brief introduction, step-by-step methods, a list of necessary materials, and a Notes section which shares tips on troubleshooting and avoiding known pitfalls. Comprehensive and innovative, Plant Genomics: Methods and Protocols is an essential guide for all plant scientists who are interested in further studies in the area of genomics research.

Current Protocols in Human Genetics

Nicholas C. Dracopoli,Jonathan L. Haines,Bruce R. Korf,Donald T. Moir
Current Protocols in Human Genetics Book PDF

Author : Nicholas C. Dracopoli,Jonathan L. Haines,Bruce R. Korf,Donald T. Moir
Publisher : Current Protocols
Page : 211 pages
File Size : 42,8 Mb
Release : 1994
Category : Science
ISBN : 0471034207

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Current Protocols in Human Genetics by Nicholas C. Dracopoli,Jonathan L. Haines,Bruce R. Korf,Donald T. Moir Pdf

Current Protocols in Human Genetics, a two-volume looseleaf manual, is the one publication needed for comprehensive coverage of the latest methods in human genetics, including collecting family histories and pedigrees, linkage analysis, molecular genetics, physical mapping and genomics, clinical diagnostic procedures, cytogenetics, gene therapy, and forensics. The editors' and authors' expert commentaries assist you in conducting sophisticated experimental projects for the analysis of human and other higher eukaryotic genomes. Carefully edited, step-by-step protocols replete with material lists, background information, and safety and troubleshooting tips ensure that you can duplicate the experimental results in your own laboratory. Quarterly updates, which are filed into the looseleaf, keep the set current with the latest developments in genome methods by providing new protocols and updating existing ones. The initial purchase includes one year of updates and then subscribers may renew their annual subscriptions. Current Protocols publishes a family of laboratory manuals for bioscientists, including Molecular Biology, Immunology, Protein Science, Cytometry, Cell Biology, Neuroscience, Pharmacology, and Toxicology.