Combinatorial Library, 2002 Methods and Protocols Methods in Molecular Biology Series, Vol. 201

The continued successes of large- and small-scale genome sequencing projects are increasing the number of genomic targets available for drug d- covery at an exponential rate. In addition, a better understanding of molecular mechanisms?such as apoptosis, signal transduction, telomere control of ch- mosomes, cytoskeletal development, modulation of stress-related proteins, and cell surface display of antigens by the major histocompatibility complex m- ecules?has improved the probability of identifying the most promising genomic targets to counteract disease. As a result, developing and optimizing lead candidates for these targets and rapidly moving them into clinical trials is now a critical juncture in pharmaceutical research. Recent advances in com- natorial library synthesis, purification, and analysis techniques are not only increasing the numbers of compounds that can be tested against each specific genomic target, but are also speeding and improving the overall processes of lead discovery and optimization. There are two main approaches to combinatorial library production: p- allel chemical synthesis and split-and-mix chemical synthesis. These approaches can utilize solid- or solution-based synthetic methods, alone or in combination, although the majority of combinatorial library synthesis is still done on solid support. In a parallel synthesis, all the products are assembled separately in their own reaction vessels or microtiter plates. The array of rows and columns enables researchers to organize the building blocks to be c- bined, and provides an easy way to identify compounds in a particular well.

Library Synthesis and Quality Control.- Using a Noncovalent Protection Strategy to Enhance Solid-Phase Synthesis.- Quality Control of Solid-Phase Synthesis by Mass Spectrometry.- Preparation of Encoded Combinatorial Libraries for Drug Discovery.- Simple Tools for Manual Parallel Solid Phase Synthesis.- Cleavage of Compounds from Solid Phase by Gaseous Reagents.- Synthesis of DNA-Binding Polyamides.- The Preparation of Phenyl-stilbene Derivatives Using the Safety Catch Linker.- Host—Guest Chemistry.- Automated Structure Verification of Small Molecules Libraries Using 1D and 2D NMR Techniques.- Rapid Liquid-Phase Combinatorial Synthesis of Heterocyclic Libraries.- Soluble Polymer-Supported Methods for Combinatorial and Organic Synthesis.- Analytical Methods for Optimization and Quality Control of Combinatorial Synthesis.- Library Purification and Screening.- Resolving Racemic Mixtures Using Parallel Combinatorial Libraries.- Ligand Libraries for the Extraction of Metal Ions.- Automated Liquid-Liquid Extraction and Ion-Exchange Solid-Phase Extraction for Initial Purification.- On-Bead and Solution Screening Approaches for Genomically Derived Targets.- Computational Library Design.- Design of Virtual Combinatorial Libraries.- Approaches to Library Design for Combinatorial Chemistry.- Reagent-Based and Product-Based Computational Strategies in Library Design.- Designing Combinatorial Libraries for Efficient Screening.- Application of Neural Networks to Large Dataset QSAR, Virtual Screening, and Library Design.

Includes supplementary material: sn.pub/extras