Biocomputing: Computer Tools For Biologists 

1-88129917-1

978-1-88129917-2

S. Brown, ed., Eaton Publishing, 2003, 539 pp., soft cover

SECTION I: SPREADSHEET AND WORD PROCESSOR MACROS
1. Protein Sequence Interpretation Using a Spreadsheet Program
2. Useful Microsoft Word Macros for Molecular Biologists and Protein Chemists
3. Adaptation of Standard Spreadsheet Software for the Analysis of DNA Sequences
4. Word-Processor Macro for Restriction Endonuclease Analysis
5. Molecular BioComputing Suite: .........
6. User-Friendly and Versatile Software for Analysis of Protein Hydrophobicity
7. Color and Graphic Display (CGD): ........
8. Spreadsheet Macros for Coloring Sequence Alignments
9. ROCK: A Spreadsheet-Based Program .......
10. Spreadsheet Software for Thermodynamic Melting Point Prediction .....
11. Spreadsheet Macro for Setting Up PCR Assay Tubes
12. Spreadsheet-Based Program for Alignment of Overlapping DNA Sequences
13. Spreadsheet-Based Program for the Analysis of DNA Methylation
14. A Computer Program for Modeling the Kinetics of Gene Expression
SECTION II: SIMPLE SCRIPTING LANGUAGES
15. PCR Master Mix Volume Calculators in JavaScriptÔ
16. JavaScriptÔ Program ......
17. Scripting Wizards for ChimeÔ and RasMol
18. Biological Sequence Analysis Using Regular Expressions
19. A Virtual Molecular Biology Teaching Laboratory
20. An Introduction to Perl: the QuizMaker Revisited
21. BlastReport: ......
22. The Sequence Manipulation Suite:.......
SECTION III: SIMILARITY SEARCHING
23. Sequence Similarity Searches on the World Wide Web
24. Searching ESTs
25. Advanced Similarity Searches on the Web: .......
26. BLAST on the Web
27. BLAST - What Next?
28. Strategies for Searching Sequence Databases
29. Approaches to Detection of Distantly Related Proteins by Database Searches
30. Database Searches With Multiple Oligopeptides .....
SECTION IV: GENE EXPRESSION AND GENOMICS
31. Impact of Genomics in Drug Discovery
32. Bioinformatics: Use in Bacterial Vaccine Discovery
33. Retriever and CompareTable, .......
34. Visual Genome Explorer: .......
35. DNA Array Analysis .....
36. ArrayExplorerÓ, .......
37. Computational Methods for Gene Expression-Based Tumor Classification
38. Software for Quantitation and Visualization of Expression Array Data
SECTION V: PHYLOGENETICS AND GENOTYPING
39. Microarray Assistant Clone Organizer and Array Simulator
40. Phylogenetics - A Web of Trees
41. Phylogenetics on the Web
42. Convenient Method to Improve the Graphical Quality of Phylogenetic Trees ......
43. Computer Program for Automatically Calculating Similarity Indexes from DNA Fingerprints
44. Fingerprinting Method for Phylogenetic Classification ......
45. GELSTATS: .......
46. Increased Throughput for Fragment Analysis ......
SECTION VI: THE INTERNET
47. Designing PCR Primers on the Web
48. Multiple Sequence Alignment Tools on the Web
49. Molecular Modeling on the Web
50. Get Your Bioinformatics on the Web!
51. Snapping Up SNPs
52. Be Alert: Free Sequence Alerting Services
53. Image Processing the Internet Way
54. LabVelocityÔ: .......
55. Using a World Wide Web Server as a Local Organizer for Protein and DNA Sequences
SECTION VII: OTHER MOLBIO SOFTWARE
56. An Introduction to Molecular Visualization: Seeing in Stereo with RasMol
57. The Primer Generator: .........
58. Computer Program for Calculating the Melting Temperature ......
59. Software to Determine Optimal Oligonucleotide Sequences..........
60. DNAssist, .............
61. Laboratory Voice Data Entry System
62. ScienceLabDatabase: ......
63. Emulation of an ELISA Reader and Quantitative Image Analysis ......