Microarray analysis : biochips and eradication of all diseases / Dr. Kal Renganathan Sharma.

Format:

Book

Author/Creator:

Sharma, Kal Renganathan, author.

Series:

Biomedical engineering collection.

Biomedical engineering collection

Language:

English

Subjects (All):

DNA microarrays.

Physical Description:

1 online resource (xxviii, 295 pages) : illustrations.

Edition:

1st ed.

Place of Publication:

New York, NY : Momentum Press Engineering, 2015.

Language Note:

English

Summary:

Microarray Analysis is a natural outgrowth of the author's teaching and research into the field of microarray processing, a fast growing and developing field. The book highlights the development of various microarray analysis tools and the applications of the technology towards disease prevention and eradication. The goal is to illustrate the many sequencing methods in place, and to show the various applications of these methods. This book will show how the biochemical reactions involved in the different steps of the cure process can be studied using microarray methods. Examples will be provided throughout the text of various disease states, including the spread of cystic fibrosis in children consanguineous marriages in Saudi Arabia, genetic disorders, and autoimmune disorders. The protocols from sample preparation to confocal scanning microscopy and detectors using photo multiplier tubes, biochip manufacturing methods, advances in sequencing methods, microfluids, electrophoretic methods are discussed in detail. The Polymerase chain reaction, a technique used to amplify and simultaneously quantify a targeted DNA molecule is explored. The criteria for choosing the best surface to use for microarray analysis is elloborated. Additionally, Microarray Analysis: Biochips and Eradication of Disease will feature the statistical methods needed for analysis of DNA data from microarray analysis, including shotgun and next generation sequencing.

Contents:

1. Genominomics and prospects

Chapter objectives

Human genome project completed

Biochips

Next-generation sequencing

Applications of biochips

Consanguinous marriages

Ashkenazi Jews

Cystic fibrosis

Tuberculosis

Cancer

Sickle-cell anemia

Small pox

Paleo genomes

Colony collapse disorder

Schizophrenia

Prenatal testing

DNA for forensic investigation

Genomic surveillance

Bio-corrosion

Human immunodeficiency syndrome

Microarray analysis

Pioneers in double-helix structure of DNA

Genominomics, economics of sequencing, $1,000

Genome is within reach

Genetically modified crops

Glossary

Summary

2. Microarray analysis

Molecular basis for disease

Microarray technology development

Specifications

Nanoprint microarrayer

Ten tips for five-step process

Step 1 formulation of a biologic question

Step 2 sample preparation

Step 3 biochemical reaction

Step 4 microarray detection

Step 5 microarray data analysis and modeling

Microarray fluorescence detection

Confocal scanning microscope

Quality of substrate surface

Phosphoramadite synthesis

3. Sequencing technology advances

Genomes completed

Next-generation sequencers

Gene mapping

Electrophoretic methods

Microfluidic separations

Polymer liquids

Transport parameters

Transient concentration profile predicted using the a capite ad calcem concentration non-Fick diffusion equation in a semi-infinite medium

Convection and diffusion

4. Applications

Kinetic model for progression of cancer

Proteomics and Michaelis and Menten kinetics

Immune action mechanism

DNA hybridization kinetics-diffusion effects

Gene modifications

DNA-melting temperature

Genetic disorders and microarray analysis

Tissue microarrays and cell microarrays

Bio-based polymers

Gene silencing

Metabolomics

Recombinant DNA technology and genetically

Modified crops

Biodiesel

Consecutive-competitive reactions

Centrifugal separation of fame and glycerol: torque requirements

Shear flow theory

Results

Gene therapy

Gene activity in songbirds similar to humans

5. Next-generation sequencing

Blotting techniques

Sanger sequencing

Sequencing by synthesis

Sequencing by ligation

Pyrosequencing

Single-molecule sequencing

DNA sequencing through nanopore

6. Biochip manufacturing

Three approaches

Ex situ manufacturing

Commercial instruments

Time to print

7. Statistical characterization and normalization

Housekeeping genes and normalization

Clustering

Supervised

Variation filter

Unsupervised

Pearson's correlation coefficient

Principal component analysis

Cluster determination

Nearest neighbor clustering

Unsupervised classification

Silhouette method

Dunn's validation index

Davies-Bouldin index

C-index

Self-organizing maps

K-means clustering

Agglomerative clustering

Dendrograms

Two-dimensional dendrograms

Division or partition clustering

Bayesian clustering

Boolean networks

Bayesian networks

Relevance networks

References

About the author

Index.

Notes:

Bibliographic Level Mode of Issuance: Monograph

Includes bibliographical references (pages 271-282) and index.

Description based on print version record.

ISBN:

1-60650-670-6

OCLC:

913604543