Nucleic Acids Biochemistry

  1. Epigenetics and Nucleic Acid Modifications
    1. DNA Methylation
      1. Cytosine Methylation
        1. 5-Methylcytosine Formation
          1. CpG Dinucleotides
            1. Methylation Patterns
            2. DNA Methyltransferases
              1. DNMT1 Maintenance Activity
                1. DNMT3A and DNMT3B De Novo Activity
                  1. Cofactor Requirements
                  2. Biological Functions
                    1. Gene Silencing
                      1. X-Chromosome Inactivation
                        1. Genomic Imprinting
                          1. Transposon Silencing
                          2. Demethylation Mechanisms
                            1. Passive Demethylation
                              1. Active Demethylation
                                1. TET Enzyme Function
                              2. Histone Modifications
                                1. Types of Modifications
                                  1. Acetylation
                                    1. Methylation
                                      1. Phosphorylation
                                        1. Ubiquitination
                                        2. Histone Acetyltransferases
                                          1. HAT Enzyme Families
                                            1. Substrate Specificity
                                              1. Transcriptional Activation
                                              2. Histone Deacetylases
                                                1. HDAC Classes
                                                  1. Transcriptional Repression
                                                    1. Chromatin Compaction
                                                    2. Histone Methyltransferases
                                                      1. SET Domain Enzymes
                                                        1. Lysine Methylation
                                                          1. Arginine Methylation
                                                          2. Chromatin Remodeling
                                                            1. SWI/SNF Complex
                                                              1. ISWI Complex
                                                                1. CHD Complex
                                                              2. RNA Modifications
                                                                1. tRNA Modifications
                                                                  1. Pseudouridine Formation
                                                                    1. Base Methylation
                                                                      1. Thiolation
                                                                        1. Functional Significance
                                                                        2. rRNA Modifications
                                                                          1. Pseudouridine Sites
                                                                            1. 2'-O-Methylation
                                                                              1. snoRNA-Guided Modifications
                                                                              2. mRNA Modifications
                                                                                1. N6-Methyladenosine
                                                                                  1. 5-Methylcytosine
                                                                                    1. Pseudouridine
                                                                                      1. Cap Modifications

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                                                                                  7. Nucleic Acid Degradation and Repair

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                                                                                  9. Tools and Techniques in Nucleic Acid Research