Basic Applied Bioinformatics. (2017)

• Record Type: Book
• Further Information: Note: Chandra Sekhar Mukhopadhyay, Ratan Kumar Choudhary, Mir Asif Iquebal.
• Authors: Mukhopadhyay, Chandra Sekhar; Choudhary, Ratan Kumar; Iquebal, Mir Asif
• Contents: Dedication Preface Acknowledgements List Of Abbreviations i. Molecular Sequences and Structures Page 1 Retrieval of Sequence(s) from NCBI Nucleotide Database; CS Mukhopadhyay; RK Choudhary 2 Retrieval of Protein Sequence from UniProtKB; CS Mukhopadhyay; RK Choudhary 3 Downloading Protein Structure; CS Mukhopadhyay; RK Choudhary 4 Visualizing Protein Structure; CS Mukhopadhyay; RK Choudhary 5 Sequence Format Conversion; CS Mukhopadhyay; RK Choudhary 6 Nucleotide Sequence Analysis using Sequence Manipulation Suite (SMS); CS Mukhopadhyay; RK Choudhary 7 Detection of Restriction Enzyme Sites; CS Mukhopadhyay; RK Choudhary ii. Sequence Alignment 8 Dot Plot Analysis; CS 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 Tools; CS 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 BLASTx; CS Mukhopadhyay; RK Choudhary 15 tBLASTn; CS Mukhopadhyay; RK Choudhary 16 tBLASTx; CS Mukhopadhyay; RK Choudhary iv. Primer Designing and Quality Checking 17 Primer Designing- Basics; CS Mukhopadhyay; RK Choudhary 18 Designing of PCR Primers using Primer3 Online Tool; CS Mukhopadhyay; RK Choudhary 19 Quality Checking of the Designed Primers; CS Mukhopadhyay; RK Choudhary 20 Primer Designing for SYBR Green Chemistry of qPCR; CS 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) Algorithm; CS Mukhopadhyay; RK Choudhary 23 Construction of Phylogenetic tree: Neighbor Joining Method; CS Mukhopadhyay; RK Choudhary 24 Construction of Phylogenetic Tree: Maximum Parsimony Method; CS Mukhopadhyay; RK Choudhary 25 Construction of Phylogenetic tree: Minimum Evolution Method; CS Mukhopadhyay; RK Choudhary 26 Construction of Phylogenetic Tree using MEGA7; CS Mukhopadhyay; RK Choudhary 27 Interpretation of Phylogenetic Trees; CS Mukhopadhyay; RK Choudhary vi. Protein Structure Prediction 28 Prediction of Secondary Structure of Protein; CS Mukhopadhyay; RK Choudhary 29 Prediction of Tertiary Structure of Protein: Sequence Homology; CS Mukhopadhyay; RK Choudhary 30 Protein Structure Prediction using Threading Method; CS Mukhopadhyay; HK Manku 31 Prediction of Tertiary Structure of Protein: Ab Initio Approach; CS Mukhopadhyay; RK Choudhary 32 Validation of Predicted Tertiary Structure Protein; CS Mukhopadhyay; RK Choudhary vii. Molecular Docking and Binding Site Prediction 33 Predicting Transcription Binding Sites; S Jain; S Panwar; A Kumar 34 Predicting Translation Initiation Sites; S Jain; S Panwar; A Kumar 35 Docking of Ligand Receptors; CS Mukhopadhyay; HK Manku viii. Genome Annotation 36 Genome Annotation in Prokaryotes; CS Mukhopadhyay; RK Choudhary 37 Genome Annotation in Eukaryotes; CS Mukhopadhyay; RK Choudhary ix. Advanced Biocomputational Analyses 38 Concepts of Real Time PCR Data Analysis; RK Choudhary 39 Overview of Micro-array Data Analysis; RK Choudhary 40 Single Nucleotide Polymorphism (SNP) Mining Tools; MA Iquebal; Sarika; D Kumar 41 In silico Mining of Simple Sequence Repeats (SSR) Markers; MA Iquebal; Sarika; D Kumar 42 Basics of RNA-Seq Data Analysis; GVPPSR Kumar; AP Sahoo; A Kumar 43 Functional Annotation of Common Differentially Expressed Genes; GVPPSR Kumar; AP Sahoo; A Kumar 44 Identification of Differentially Expressed Genes (DEGs); GVPPSR Kumar; A Kumar; AP Sahoo 45 Estimating MicroRNA expression using miRDeep2 tool; GVPPSR Kumar; A Kumar; AP Sahoo 46 In silico prediction of miRNA Targets; Sarika; MA Iquebal; D Kumar x. Appendices App. A Usage of Internet for Bioinformatics; RK Choudhary App. B Important Web-Resources for Bioinformatics Databases and Tools; CS Mukhopadhyay; RK Choudhary App. C Usage of NCBI Database Resources; CS Mukhopadhyay; RK Choudhary App. D Usage of Important EMBL Tools; S Jain; S Panwar; A Kumar App. F Evolutionary Models of Molecular Phylogeny; CS Mukhopadhyay; RK Choudhary
• Edition: 1st
• Publisher Details: Wiley-Blackwell
• Publication Date: 2017
• Extent: 1 online resource (472 pages)
• Languages: English
• ISBNs: 9781119244417
• Access Rights: Legal Deposit; Only available on premises controlled by the deposit library and to one user at any one time; The Legal Deposit Libraries (Non-Print Works) Regulations (UK).
• Access Usage: Restricted: Printing from this resource is governed by The Legal Deposit Libraries (Non-Print Works) Regulations (UK) and UK copyright law currently in force.