Bioinformatics -- a student's companion

This manual offers a stand-alone reading companion, unique in simplifying the practical components of Bioinformatics in a unique and user-friendly manner. It covers the practical component of syllabi used at most leading universities and discusses the most extensively used tools and methodologies in...

Full description

Saved in:
Bibliographic Details
Main Authors Ibrahim, Kalibulla Syed (Author), Gurusubramanian, Guruswami (Author), Zothansanga (Author), Yadav, Ravi Prakash (Author), Kumar, Nachimuthu Senthil (Author), Pandian, Shunmugiah Karutha (Author), Borah, Probodh (Author), Mohan, Surender (Author)
Format Electronic eBook
LanguageEnglish
Published Singapore : Springer, 2017.
Subjects
Bioinformatics.
elektronické knihy
electronic books
Online AccessFull text
ISBN9789811018572
9789811018565
Physical Description1 online resource (xv, 283 pages) : illustrations

Cover

Table of Contents:
  • Foreword; Preface; Contents; About the Authors; 1 Nucleotide Analysis; 1.1 Sequence Retrieval; 1.2 Primer Designing; 1.3 Designing Degenerate Primers; 1.4 Reading of Sequence Trace Files Using Finch TV; 1.5 Troubleshooting DNA Sequencing Problems; 1.6 Editing Sequence Data; 1.7 Sequence Assembly-CAP3 Program; 1.8 Checking for Vector Contamination; 1.9 Restriction Mapping Using NEBcutter; 1.10 Gene Prediction Using ORF Finder (Open Reading Frame Finder); 1.11 Gene Prediction Using FGENESB; 1.12 Dot-Plot; 1.13 Global Sequence Alignment; 1.14 Local Sequence Alignment
  • 1.15 Basic Local Alignment Search Tool (BLAST)-Nucleotide BLAST1.16 Interpreting BLAST Result; 1.17 Multiple Sequence Alignment: T-Coffee for Small Alignments; 1.18 Multiple Sequence Alignment-MUSCLE for Medium Alignments; 1.19 Multiple Sequence Alignment-MAFFT for Large Alignments; 1.20 Multiple Sequence Alignment and Phylogenetic Analysis Using MEGA; 2 DNA Marker Analysis; 2.1 Genetic Analysis Using NTSYSpc (Numerical Taxonomy System); 2.2 Principal Coordinate Analysis (PCOORDA) Using NTSYSpc; 2.3 Population Genetic Analysis Using PowerMarker
  • 2.4 Dissimilarity Analysis-DARwin5 (Dissimilarity Analysis and Representation for Windows)3 RNA Analysis; 3.1 Predicting RNA Secondary Structure; 3.2 Finding Repeats; 4 Protein Sequence Analysis; 4.1 Protein Sequence Retrieval from UniProtKB; 4.2 Visualization of Features in a Multiple Sequence Alignment; 4.3 Predicting Signal Peptides in Proteins Using SignalP 4.1 Server; 4.4 Predicting Transmembrane Segments and Signal Peptides in Proteins Using Phobius; 4.5 Predicting Subcellular Location Using TargetP; 4.6 Protein BLAST (blastp); 4.7 Position-Specific Iterated (PSI)-BLAST
  • 4.8 Creating Pattern from Alignment4.9 Pattern-Hit Initiated (PHI)-BLAST; 4.10 Domain Enhanced Lookup Time Accelerated-BLAST (DELTA-BLAST); 5 Protein Structure Analysis; 5.1 Protein Primary Structure Analysis-ProtParam; 5.2 Protein Secondary Structure Prediction; 5.2.1 Secondary Structure Prediction Using SOPMA; 5.2.2 Secondary Structure Prediction Using PSIPRED; 5.3 Protein Tertiary Structure Prediction by Homology Modelling; 5.3.1 Homology Modelling Using SwissModel; 5.3.2 Protein Tertiary Structure Prediction by Threading (Fold Recognition); 5.4 Protein Tertiary Structure Analysis
  • 5.4.1 RAMPAGE5.4.2 Protein Structure Analysis Using SAVeS; 5.5 Protein Structure Visualization; 5.5.1 RasMol; 5.5.2 PyMol; 5.6 Protein Structure Alignment/Superimpose Using SuperPose; 5.7 Protein Cleft Analysis; 6 Protein-Ligand Interactions; 6.1 Protein-Ligand Docking Using AutoDock4.1 and MGLTools; 6.2 Protein-Protein Docking Using ClusPro2.0; Appendix: Online Resources on Bioinformatics; References

Similar Items