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Chemical information for chemists: a primer
Publisher
Royal Society of Chemistry
Publication Date
c2014
Language
English
Description
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Table of Contents
From the Book
I. Introduction
Chapter 1. Introduction to the Chemical Literature / Leah McEwen
1.1. Chemical Information Three Ways: The Big Picture Of Big Information
1.2. Approaching the Literature: Principles to Bear in Mind When You Are Searching For Chemical Information
1.2.1. Scholarly Literature is Evaluated to Uphold Scientific Integrity and Vitality
1.2.2. Data Provenance and Evaluation is a Critical Part of the Research Process
1.2.3. Scientific Literature is Considered Intellectual Property
1.2.4. Scholarly Literature is Structured to Facilitate Research
1.2.5. The Literature is a Web of Potential
1.2.6. Libraries and Other Information Providers Offer Disambiguation
1.3. Getting Started with the Chemical Literature
1.3.1. Your Literature Research Is Only as Good as Your Input and Process
1.3.2. How to Use the Literature to be a More Efficient Chemist
References
II. The Primary Literature
Chapter 2. Non-Patent Primary Literature: Journals, Conference Papers, Reports, Abstracts and Preprints / Dana L. Roth
2.1. Introduction to the Non-Patent Primary Literature
2.2. Journals
2.2.1. Introduction
2.2.2. Open Access
2.2.3. Indexing and Abstracting Services
2.2.4. Current Awareness
2.2.5. Journal Impact
2.2.6. Article Impact
2.3. Conference Papers, Reports, Abstracts and Preprints
2.3.1. Introduction
2.3.2. Indexing and Abstracting Services
2.3.3. Current Awareness
References
Chapter 3. Chemical Patents / Michael J. White
3.1. History and Overview of Chemical Patents
3.2. Benefits of Using Patent Information
3.3. What is a Patent?
3.4. Relationship of Patents to Other Forms of Intellectual Property
3.4.1. Trade Secrets
3.4.2. Trademarks
3.4.3. Copyrights
3.5. Types of Patents
3.5.1. Utility Patents
3.5.2. Design Patents (Industrial Designs)
3.5.3. Plant Patents
3.5.4. Utility Models
3.5.5. Supplementary Protection Certificates
3.5.6. Patent Gazettes, Journals, Abstracts, and Indexes
3.6. Patent Process from Invention to Public Domain
3.6.1. Patent Process
3.6.2. Patenting Abroad
3.6.3. Patent Families
3.6.4. Legal Status and Ownership (Assignment)
3.7. Patent Documents
3.7.1. INID Codes
3.7.2. Patent Numbers
3.7.3. Front Page, Drawings, Specification, and Claims
3.8. Patent Searching
3.8.1. Types of Searches
3.8.2. Searching Inventor and Company Names
3.8.3. Searching Cited References
3.8.4. Patent Classification Searching (Subject Searching)
3.9. Major Patent Databases
3.10. Chemistry Databases and Search Engines Containing Patent Information
3.11. Resources for Drugs and Pharmaceutical Patents
3.12. Patent Information Associations and Resources
Further Reading
References
III. The Secondary Literature and Specialized Search Techniques
Chapter 4. Searching Using Text: Beyond Web Search Engines / Andrea Twiss-Brooks
4.1. Why Web Search Engines Aren't Enough
4.2. Practical Approaches to Searching a Topic Using Subject Databases
4.2.1. Controlled Text Terms
4.2.2. Using Boolean Logic and Term Adjacency in Text Searching
4.2.3. Word or Term Variants
4.3. Searching for Author Names
4.4. Searching for References Cited in Other Publications
4.4.1. Performing a Citation Search
4.4.2. Determining Citation Impact
4.5. Conclusion
References
Chapter 5. Searching by Structure and Substructure / Judith N. Currano
5.1. Searching by Structure
5.1.1. Identifying Substances for Information Retrieval
5.1.2. When to Perform a Structure Search
5.1.3. Behind the Scenes with Structure Searching
5.2. Searching by Substructure
5.2.1. Introduction to Substructure Searching
5.2.2. Basic Procedure for Substructure Searching
5.2.3. Advanced Substructure Techniques
5.3. Searching for Organometallics and Coordination Compounds by Structure and Substructure
5.3.1. Drawing Coordinations
5.3.2. Defining the Number of Connections a Metal May Form
5.3.3. Ligand Formula Searching in Reaxys®
5.4. Similarity Searching
5.5. A Word on Markush Searching
5.6. Conclusion
Acknowledgements
References
Chapter 6. Physical Properties and Spectra / A. Ben Wagner
6.1. Introduction and Methodology
6.2. Identifying Substances and Properties for Information Retrieval
6.2.1. Identifying Substances
6.2.2. Identifying Properties and Units
6.3. Evaluating Physical Properties Sources and Data Provenance
6.4. Major Online Resources (The Places to Start)
6.4.1. Best and Largest Free Compilations
6.4.2. Best and Largest Subscription Compilations
6.5. Using Handbooks to Find Properties and Profile Substances
6.5.1. How to Find and Use Print Handbooks
6.5.2. Online Handbooks
6.5.3. The Beilstein and Gmelin Handbooks
6.5.4. Landolt Börnstein (Print)
6.5.5. When to Consult the Primary Literature
6.5.6. Conclusion
6.6. Using Library Guides and Specialized Sources to Identify Additional Resources
6.6.1. General Guides
6.6.2. Finding Specialized Resources
6.6.3. Corporate Sources of Properties: Product Literature, Corporate Libraries and Archives, Notebooks
6.7. Finding Spectra
6.7.1. Best and Largest Free Spectral Databases
6.7.2. Best and Largest Subscription Spectral Databases
6.7.3. Print Resources, Library Guides, and Specialized Resources I
6.7.4. Crystallography
6.8. Conclusion
References
Chapter 7. Commercial Availability, Safety, and Hazards / Dana L. Roth
7.1. Introduction
7.2. Commercial Availability
7.2.1. Commercial Availability Resources
7.3. Safety
7.3.1. The Importance of Safety in the Chemical Laboratory
7.3.2. Safety Resources
7.4. Hazards
7.4.1. Introduction
7.4.2. Hazards Resources
7.4.3. Conclusion
References
Chapter 8. Searching For Polymers / Donna T. Wrublewski
8.1. Introduction
8.2. Polymer Nomenclature and Structure
8.2.1. Text Name Searching
8.2.2. Structure Searching
8.3. Polymer Synthesis
8.4. Polymer Structure Characterization
8.4.1. Molar Mass and Dispersity
8.4.2. Spectral Analyses
8.4.3. X-ray Diffraction and Scattering Analysis of Structure
8.5. Polymer Thermophysical Properties
8.5.1. Glass Transition, Melting, and Decomposition Temperatures
8.5.2. Polymer Solubility and Miscibility
8.6. Polymer Mechanical and Engineering Properties
8.6.1. Viscoelastic Behavior
8.6.2. Static Testing
8.6.3. Dynamic Testing
8.7. General Polymer Science Reference Sources Bibliography
8.8. Conclusions
Acknowledgements
References
Chapter 9. Reaction Searching / Judith N. Currano
9.1. Introduction
9.2. Techniques of Reaction Searching
9.2.1. Types of Graphical Reaction Search
9.2.2. Searching for General Methods and Transformations
9.2.3. Advanced Graphical Reaction Search Techniques
9.2.4. Searching for Catalyzed Reactions
9.3. Tools for Reaction Searching
9.3.1. Graphical Reaction Databases
9.3.2. Sources of Information on Reagents and Catalysts
9.3.3. Methodology Sources and Review Literature
9.4. Conclusion
Acknowledgements
References
Chapter 10. A Practical Primer to BLAST Sequence Similarity Searching / Diane C. Rein
10.1. Introduction
10.2. Before Searching: Distinguishing Between Identical, Similar (Identity), and Homologous Sequences
10.2.1. Defining Identical
10.2.2. Defining Similarity
10.2.3. Defining Homology
10.3. The Major Sequence Similarity Algorithms and Their (Continuing) Relationship with BLAST
10.3.1. The Needleman-Wunsch Algorithm
10.3.2. The Smith-Waterman Algorithm
10.3.3. The FASTA Algorithm
10.3.4. The BLAST Algorithm
10.4. How BLAST Works
10.4.1. Implications for Determining Best Query Length
10.5. The Art of Interpreting E-Values
10.6. Creating a Sequence Similarity Algorithm Strategy/Protocol
10.7. NCBI Protein BLAST (BLASTP) Hands-on Exercise
10.7.1. Preparing to Search
10.7.2. Configuring and Running Protein BLAST Searches
10.8. Understanding BLAST Result Sections
10.8.1. Saving BLAST Search Strategies
10.8.2. BLAST Results Header Section
10.8.3. BLAST Results Graphic Summary Section
10.8.4. BLAST Results Descriptions Section
10.8.5. BLAST Results Alignments Section
10.9. Manipulating BLAST Results
10.9.1. Reformatting the Alignment View
10.9.2. Reformatting (Limiting) BLAST Results to Organisms
10.9.3. Reformatting (Limiting) E-Values
10.10. Editing and Resubmitting BLAST Searches
10.11. Advanced BLAST Techniques
10.11.1. Working with Short Queries (Primers, Motifs, Epitopes)
10.11.2. Comparing (Aligning) Sequences
10.11.3. Manipulating BLAST to Search Your Query Sequence Where You Want
References
Subject Index
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ISBN
9781849735513
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