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This volume explores the latest available wet-lab techniques and computational methods to study in-cell small-molecule behavior and interactions with their targets. The chapters in this book discuss topics such as disease-relevant models for chemical biology studies, target engagement using cellular thermal shift assay or bioluminescence resonance energy transfer; visualization of bio-active small molecules Raman microscopy; (phospho-)proteomics and transcriptomics for mode-of-action studies, CRISPR/Cas9-based chemogenomic profiling in mammalian cells; predicting drug interactions using computational approaches; comparison of compound-induced profiles using high-content imaging or cancer cell line panels and web-based tools for polypharmacology prediction. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and thorough, Systems Chemical Biology: Methods and Protocols is a valuable resource for novice or expert scientists and researchers trying to initiate or continue their chemical biology studies at a systems level.
Inhaltsverzeichnis
1. PREDECT protocols for complex 2D/3D cultures.- 2. Phenotypic Screening using Mouse and Human Stem Cell-based Models of Neuroinflammation and Gene Expression Analysis to Study Drug Responses.- 3. Quantitative, Real-Time Measurements of Intracellular Target Engagement Using Energy Transfer.- 4. Target Engagement of Small Molecules - Thermal Profiling Approaches on Different Levels.- 5. Visualizing Bio-active Small Molecules by Alkyne-tagging and Slit-scanning Raman Microscopy.- 6. The Cell Painting Assay as a screening tool for the discovery of bioactivities in new chemical matter.- 7. Proteomic Profiling for Target Identification of Biologically Active Small Molecules using 2-D DIGE.- 8. Examining Cellular Responses to Kinase Drug Inhibition through Phosphoproteome Mapping of Substrates.- 9. CRISPR/Cas9-based Chemogenomic Profiling in Mammalian Cells.- 10. Exome Sequencing of Drug-resistant Clones for Target Identification.- 11. The use of large-scale chemically-induced transcriptomedata acquired from LINCS to study small molecules.- 12. Integrated Analysis of Drug Sensitivity and Selectivity to Predict Synergistic Drug Combinations and Target Co-addictions in Cancer.- 13. Predicting Drug Interactions from Chemogenomics using INDIGO.- 14. Computational Analyses Connect Small-Molecule Sensitivity to Cellular Features Using Large Panels of Cancer Cell Lines.- 15. Web-based tools for Polypharmacology Prediction.- 16. In silico Target Prediction for Small Molecules.
Zusammenfassung
This volume explores the latest available wet-lab techniques and computational methods to study in-cell small-molecule behavior and interactions with their targets. The chapters in this book discuss topics such as disease-relevant models for chemical biology studies, target engagement using cellular thermal shift assay or bioluminescence resonance energy transfer; visualization of bio-active small molecules Raman microscopy; (phospho-)proteomics and transcriptomics for mode-of-action studies, CRISPR/Cas9-based chemogenomic profiling in mammalian cells; predicting drug interactions using computational approaches; comparison of compound-induced profiles using high-content imaging or cancer cell line panels and web-based tools for polypharmacology prediction. Written in the highly successful
Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and thorough,
Systems Chemical Biology: Methods and Protocols is a valuable resource for novice or expert scientists and researchers trying to initiate or continue their chemical biology studies at a systems level.
