Basic Applied Bioinformatics

An accessible guide that introduces students in all areas of life sciences to bioinformatics Basic Applied Bioinformatics provides a practical guidance in bioinformatics and helps students to optimize parameters for data analysis and then to draw accurate conclusions from the results. In addition to parameter optimization, the text will also familiarize students with relevant terminology. Basic Applied Bioinformatics is written as an accessible guide for graduate students studying bioinformatics, biotechnology, and other related sub–disciplines of the life sciences. This accessible text outlines the basics of bioinformatics, including pertinent information such as downloading molecular sequences (nucleotide and protein) from databases; BLAST analyses; primer designing and its quality checking, multiple sequence alignment (global and local using freely available software); phylogenetic tree construction (using UPGMA, NJ, MP, ME, FM algorithm and MEGA7 suite), prediction of protein structures and genome annotation, RNASeq data analyses and identification of differentially expressed genes and similar advanced bioinformatics analyses. The authors Chandra Sekhar Mukhopadhyay, Ratan Kumar Choudhary, and Mir Asif Iquebal are noted experts in the field and have come together to provide an updated information on bioinformatics. Salient features of this book includes: Accessible and updated information on bioinformatics tools A practical step–by–step approach to molecular–data analyses Information pertinent to study a variety of disciplines including biotechnology, zoology, bioinformatics and other related fields Worked examples, glossary terms, problems and solutions Basic Applied Bioinformatics gives students studying bioinformatics, agricultural biotechnology, animal biotechnology, medical biotechnology, microbial biotechnology, and zoology an updated introduction to the growing field of bioinformatics. INDICE: Dedication .Preface .Acknowledgements .List Of Abbreviations .i. Molecular Sequences and Structures Page .1 Retrieval of Sequence(s) from NCBI Nucleotide DatabaseCS Mukhopadhyay; RK Choudhary .2 Retrieval of Protein Sequence from UniProtKBCS Mukhopadhyay; RK Choudhary .3 Downloading Protein StructureCS Mukhopadhyay; RK Choudhary .4 Visualizing Protein StructureCS Mukhopadhyay; RK Choudhary .5 Sequence Format ConversionCS Mukhopadhyay; RK Choudhary .6 Nucleotide Sequence Analysis using Sequence Manipulation Suite (SMS)CS Mukhopadhyay; RK Choudhary .7 Detection of  Restriction Enzyme SitesCS Mukhopadhyay; RK Choudhary .ii. Sequence Alignment .8 Dot Plot AnalysisCS Mukhopadhyay; RK Choudhary .9 Needleman–Wunsch Algorithm (Global Alignment)CS Mukhopadhyay; RK Choudhary .10 Smith–Waterman Algorithm (Local Alignment)CS Mukhopadhyay; RK Choudhary .11 Sequence Alignment using Online ToolsCS Mukhopadhyay; RK Choudhary .iii. Basic Local Alignment Search Tools .12 Basic Local Alignment Search Tool for nucleotide (BLASTn)CS Mukhopadhyay; RK Choudhary .13 Basic Local Alignment Search Tool for Amino Acid Sequences (BLASTp)CS Mukhopadhyay; RK Choudhary .14 BLASTxCS Mukhopadhyay; RK Choudhary .15 tBLASTnCS Mukhopadhyay; RK Choudhary .16 tBLASTxCS Mukhopadhyay; RK Choudhary .iv. Primer Designing and Quality Checking .17 Primer Designing– BasicsCS Mukhopadhyay; RK Choudhary .18 Designing of PCR Primers using Primer3 Online ToolCS Mukhopadhyay; RK Choudhary .19 Quality Checking of the Designed PrimersCS Mukhopadhyay; RK Choudhary .20 Primer Designing for SYBR Green Chemistry of qPCRCS Mukhopadhyay; RK Choudhary .v. Molecular Phylogenetics .21 Construction of Phylogenetic Tree: Unweighted Pair Group Method with Arithmetic mean (UPGMA)CS Mukhopadhyay; RK Choudhary .22 Construction of Phylogenetic tree: Fitch Margoliash (FM) AlgorithmCS Mukhopadhyay; RK Choudhary .23 Construction of Phylogenetic tree: Neighbor Joining MethodCS Mukhopadhyay; RK Choudhary .24 Construction of Phylogenetic Tree: Maximum Parsimony MethodCS Mukhopadhyay; RK Choudhary .25 Construction of Phylogenetic tree: Minimum Evolution MethodCS Mukhopadhyay; RK Choudhary .26 Construction of Phylogenetic Tree using MEGA7CS Mukhopadhyay; RK Choudhary .27 Interpretation of Phylogenetic TreesCS Mukhopadhyay; RK Choudhary .vi. Protein Structure Prediction .28 Prediction of Secondary Structure of ProteinCS Mukhopadhyay; RK Choudhary .29 Prediction of Tertiary Structure of Protein: Sequence HomologyCS Mukhopadhyay; RK Choudhary .30 Protein Structure Prediction using Threading MethodCS Mukhopadhyay; HK Manku .31 Prediction of Tertiary Structure of Protein: Ab Initio ApproachCS Mukhopadhyay; RK Choudhary .32 Validation of Predicted Tertiary Structure ProteinCS Mukhopadhyay; RK Choudhary .vii. Molecular Docking and Binding Site Prediction .33 Predicting Transcription Binding SitesS Jain; S Panwar; A Kumar .34 Predicting Translation Initiation SitesS Jain; S Panwar; A Kumar .35 Docking of Ligand ReceptorsCS Mukhopadhyay; HK Manku .viii. Genome Annotation .36 Genome Annotation in ProkaryotesCS Mukhopadhyay; RK Choudhary .37 Genome Annotation in EukaryotesCS Mukhopadhyay; RK Choudhary .ix. Advanced Biocomputational Analyses .38 Concepts of Real Time PCR Data AnalysisRK Choudhary .39 Overview of Micro–array Data AnalysisRK Choudhary .40 Single Nucleotide Polymorphism (SNP) Mining ToolsMA Iquebal; Sarika; D Kumar .41 In silico Mining of Simple Sequence Repeats (SSR) MarkersMA Iquebal; Sarika; D Kumar .42 Basics of RNA–Seq Data AnalysisGVPPSR Kumar; AP Sahoo; A Kumar .43 Functional Annotation of Common Differentially Expressed GenesGVPPSR Kumar; AP Sahoo; A Kumar .44 Identification of Differentially Expressed Genes (DEGs)GVPPSR Kumar; A Kumar; AP Sahoo .45 Estimating MicroRNA expression using miRDeep2 toolGVPPSR Kumar; A Kumar; AP Sahoo .46 In silico prediction of miRNA TargetsSarika; MA Iquebal; D Kumar .x. Appendices .App. A Usage of Internet for BioinformaticsRK Choudhary .App. B Important Web–Resources for Bioinformatics Databases and ToolsCS Mukhopadhyay; RK Choudhary .App. C Usage of NCBI Database ResourcesCS Mukhopadhyay; RK Choudhary .App. D Usage of Important EMBL ToolsS Jain; S Panwar; A Kumar .App. F Evolutionary Models of Molecular PhylogenyCS Mukhopadhyay; RK Choudhary . 

• ISBN: 978-1-119-24433-2
• Editorial: Wiley–Blackwell
• Encuadernacion: Cartoné
• Páginas: 472
• Fecha Publicación: 31/10/2017
• Nº Volúmenes: 1
• Idioma: Inglés