Chemical and Genomic Methods in Nucleic Acid Biology, Volume 704 highlights new advances in the field of nucleic acids, with this new volume presenting interesting chapters written by an international board of authors. Specific chapters in this new release include A real-time FRET-based biochemical assay for DNA deaminase enzymology and inhibition, DEER spectroscopy to probe DNA wrapping by protein complexes, PAR-dCLIP: Enhancing PhotoActivatable Ribonucleoside analog-enhanced CrossLinking and Immunoprecipitation through capture of bound 5’ terminal RNA fragments, Site-specific targeting of transgene cDNA insertion, Simultaneous Profiling of the RNA Targets of Two RNA-Binding Proteins Using TRIBE-STAMP, and much more.
Additional chapters cover Ensemble FRET Approach to Directly and Continuously Monitor Protein? DNA Interactions, Utilizing nuclear extracts to characterize protein-DNA interactions at the single-molecule level, RNA-Guided Protease Activation in CRISPR-Cas, Activity-based profiling of RNA modifying enzymes, Purification of Cas9 and Cas12a for Peptide-Assisted Genome Editing, Studying the intersection of nucleoside modifications and SARS-CoV-2 RNA-dependent RNA transcription using an in vitro reconstituted system, and more.
1. Cover image - p. i 2. Title page - p. ii 3. Table of Contents - p. iii 4. Series Page - p. iii 5. Copyright - p. iv 6. Contributors - p. xvii 7. Preface - p. xxi 8. Chapter One: Experimental considerations for precise RNA-mediated insertion of transgenes - p. 1 9. Chapter Two: Expression and purification of cell-penetrating Cas9 and Cas12a enzymes for peptide-assisted genome editing - p. 25 10. Chapter Three: A user guide to RT-based mapping of RNA modifications - p. 52 11. Chapter Four: Studying the intersection of nucleoside modifications and SARS-CoV-2 RNA-dependent RNA transcription using an in vitro reconstituted system - p. 81 12. Chapter Five: Global characterization of RNA modifying enzymes with RNA-mediated activity-based protein profiling (RNABPP) - p. 111 13. Chapter Six: Simultaneous profiling of the RNA targets of two RNA-binding proteins using TRIBE-STAMP - p. 127 14. Chapter Seven: PAR-dCLIP: Enabling detection of RNA binding protein target transcripts bound at 5′ termini through the incorporation of a decapping step - p. 159 15. Chapter Eight: Expression, purification, and biochemical analysis of the RNA-DNA hybrid helicase Sen1/SETX from Chaetomium thermophilum - p. 223 16. Chapter Nine: Strand-specific PCR-competitive replication and adduct bypass assay for assessing how DNA adducts perturb DNA replication in mammalian cells - p. 251 17. Chapter Ten: Direct, ensemble FRET approaches to monitor transient state kinetics of human DNA polymerase δ holoenzyme assembly and initiation of DNA synthesis - p. 271 18. Chapter Eleven: RADD: A real-time FRET-based biochemical assay for DNA deaminase studies - p. 311 19. Chapter Twelve: AP endonuclease 1: Biological updates and advances in activity analysis - p. 347 20. Chapter Thirteen: Simultaneous probing of transcription, G-quadruplex, and R-loop - p. 377 21. Chapter Fourteen: Utilizing nuclear extracts to characterize protein: DNA interactions at the single molecule level - p. 397 22. Chapter Fifteen: Measuring protein stoichiometry with single-molecule imaging in Xenopus egg extracts - p. 427
Chemical and Genomic Methods in Nucleic Acid Biology, Volume 704 highlights new advances in the field of nucleic acids, with this new volume presenting interesting chapters written by an international board of authors. Specific chapters in this new release include A real-time FRET-based biochemical assay for DNA deaminase enzymology and inhibition, DEER spectroscopy to probe DNA wrapping by protein complexes, PAR-dCLIP: Enhancing PhotoActivatable Ribonucleoside analog-enhanced CrossLinking and Immunoprecipitation through capture of bound 5’ terminal RNA fragments, Site-specific targeting of transgene cDNA insertion, Simultaneous Profiling of the RNA Targets of Two RNA-Binding Proteins Using TRIBE-STAMP, and much more.
Additional chapters cover Ensemble FRET Approach to Directly and Continuously Monitor Protein? DNA Interactions, Utilizing nuclear extracts to characterize protein-DNA interactions at the single-molecule level, RNA-Guided Protease Activation in CRISPR-Cas, Activity-based profiling of RNA modifying enzymes, Purification of Cas9 and Cas12a for Peptide-Assisted Genome Editing, Studying the intersection of nucleoside modifications and SARS-CoV-2 RNA-dependent RNA transcription using an in vitro reconstituted system, and more.
1. Cover image - p. i 2. Title page - p. ii 3. Table of Contents - p. iii 4. Series Page - p. iii 5. Copyright - p. iv 6. Contributors - p. xvii 7. Preface - p. xxi 8. Chapter One: Experimental considerations for precise RNA-mediated insertion of transgenes - p. 1 9. Chapter Two: Expression and purification of cell-penetrating Cas9 and Cas12a enzymes for peptide-assisted genome editing - p. 25 10. Chapter Three: A user guide to RT-based mapping of RNA modifications - p. 52 11. Chapter Four: Studying the intersection of nucleoside modifications and SARS-CoV-2 RNA-dependent RNA transcription using an in vitro reconstituted system - p. 81 12. Chapter Five: Global characterization of RNA modifying enzymes with RNA-mediated activity-based protein profiling (RNABPP) - p. 111 13. Chapter Six: Simultaneous profiling of the RNA targets of two RNA-binding proteins using TRIBE-STAMP - p. 127 14. Chapter Seven: PAR-dCLIP: Enabling detection of RNA binding protein target transcripts bound at 5′ termini through the incorporation of a decapping step - p. 159 15. Chapter Eight: Expression, purification, and biochemical analysis of the RNA-DNA hybrid helicase Sen1/SETX from Chaetomium thermophilum - p. 223 16. Chapter Nine: Strand-specific PCR-competitive replication and adduct bypass assay for assessing how DNA adducts perturb DNA replication in mammalian cells - p. 251 17. Chapter Ten: Direct, ensemble FRET approaches to monitor transient state kinetics of human DNA polymerase δ holoenzyme assembly and initiation of DNA synthesis - p. 271 18. Chapter Eleven: RADD: A real-time FRET-based biochemical assay for DNA deaminase studies - p. 311 19. Chapter Twelve: AP endonuclease 1: Biological updates and advances in activity analysis - p. 347 20. Chapter Thirteen: Simultaneous probing of transcription, G-quadruplex, and R-loop - p. 377 21. Chapter Fourteen: Utilizing nuclear extracts to characterize protein: DNA interactions at the single molecule level - p. 397 22. Chapter Fifteen: Measuring protein stoichiometry with single-molecule imaging in Xenopus egg extracts - p. 427
