Genetics and Genomics

  1. Genomics and Bioinformatics
    1. Genomics Overview
      1. Structural Genomics
        1. Genome Mapping
          1. Physical Mapping
            1. Genetic Mapping
              1. Chromosome Walking
              2. Functional Genomics
                1. Gene Function Analysis
                  1. Expression Profiling
                    1. Protein Function
                      1. Regulatory Networks
                      2. Comparative Genomics
                        1. Cross-Species Comparisons
                          1. Synteny Analysis
                            1. Evolutionary Relationships
                          2. Genome Sequencing Technologies
                            1. Classical Approaches
                              1. DNA Cloning Strategies
                                1. Genomic Library Construction
                                  1. BAC Libraries
                                    1. YAC Libraries
                                      1. Cosmid Libraries
                                      2. cDNA Library Construction
                                        1. Reverse Transcription
                                          1. Cloning Vectors
                                            1. Expression Libraries
                                          2. First-Generation Sequencing
                                            1. Sanger Method
                                              1. Dideoxy Termination
                                                1. Chain Termination
                                                  1. Electrophoretic Separation
                                                    1. Automated Sequencing
                                                    2. Maxam-Gilbert Method
                                                    3. Next-Generation Sequencing
                                                      1. Platform Types
                                                        1. Illumina Sequencing
                                                          1. Ion Torrent
                                                            1. 454 Pyrosequencing
                                                            2. Library Preparation
                                                              1. Cluster Generation
                                                                1. Sequencing Chemistry
                                                                  1. Data Output Characteristics
                                                                  2. Third-Generation Sequencing
                                                                    1. Single-Molecule Sequencing
                                                                      1. PacBio Technology
                                                                        1. Oxford Nanopore
                                                                        2. Long-Read Advantages
                                                                          1. Real-Time Sequencing
                                                                        3. Genome Assembly and Analysis
                                                                          1. Sequence Assembly
                                                                            1. Overlap-Layout-Consensus
                                                                              1. String Graph Approach
                                                                                1. De Bruijn Graph Method
                                                                                  1. Contig Formation
                                                                                    1. Scaffold Construction
                                                                                      1. Gap Filling
                                                                                      2. Genome Annotation
                                                                                        1. Gene Prediction
                                                                                          1. Ab Initio Methods
                                                                                            1. Homology-Based Methods
                                                                                              1. Evidence-Based Methods
                                                                                              2. Functional Annotation
                                                                                                1. Protein Domain Identification
                                                                                                  1. Pathway Assignment
                                                                                                    1. GO Term Assignment
                                                                                                    2. Regulatory Element Prediction
                                                                                                      1. Promoter Identification
                                                                                                        1. Enhancer Prediction
                                                                                                          1. Transcription Factor Binding Sites
                                                                                                      2. Bioinformatics Tools and Databases
                                                                                                        1. Sequence Databases
                                                                                                          1. GenBank Structure
                                                                                                            1. EMBL Database
                                                                                                              1. DDBJ Database
                                                                                                                1. RefSeq Collections
                                                                                                                2. Genome Browsers
                                                                                                                  1. UCSC Genome Browser
                                                                                                                    1. Ensembl Browser
                                                                                                                      1. NCBI Genome Browser
                                                                                                                      2. Sequence Analysis Tools
                                                                                                                        1. BLAST Algorithm
                                                                                                                          1. BLASTN
                                                                                                                            1. BLASTP
                                                                                                                              1. BLASTX
                                                                                                                                1. TBLASTN
                                                                                                                                2. Multiple Sequence Alignment
                                                                                                                                  1. ClustalW
                                                                                                                                    1. MUSCLE
                                                                                                                                      1. T-Coffee
                                                                                                                                      2. Phylogenetic Software
                                                                                                                                        1. PHYLIP
                                                                                                                                          1. MEGA
                                                                                                                                            1. RAxML
                                                                                                                                          2. Specialized Databases
                                                                                                                                            1. Protein Databases
                                                                                                                                              1. Pathway Databases
                                                                                                                                                1. Expression Databases
                                                                                                                                                  1. Variation Databases
                                                                                                                                                2. Functional Genomics Approaches
                                                                                                                                                  1. Transcriptomics
                                                                                                                                                    1. Microarray Technology
                                                                                                                                                      1. Array Design
                                                                                                                                                        1. Hybridization Principles
                                                                                                                                                          1. Data Analysis
                                                                                                                                                          2. RNA Sequencing
                                                                                                                                                            1. Library Preparation
                                                                                                                                                              1. Sequencing Strategies
                                                                                                                                                                1. Differential Expression Analysis
                                                                                                                                                                  1. Alternative Splicing Detection
                                                                                                                                                                  2. Single-Cell RNA-Seq
                                                                                                                                                                  3. Proteomics
                                                                                                                                                                    1. Protein Identification
                                                                                                                                                                      1. Mass Spectrometry
                                                                                                                                                                        1. Protein Separation
                                                                                                                                                                          1. Database Searching
                                                                                                                                                                          2. Protein Quantification
                                                                                                                                                                            1. Label-Free Methods
                                                                                                                                                                              1. Isotope Labeling
                                                                                                                                                                              2. Protein Interactions
                                                                                                                                                                                1. Yeast Two-Hybrid
                                                                                                                                                                                  1. Co-Immunoprecipitation
                                                                                                                                                                                    1. Protein Arrays
                                                                                                                                                                                  2. Metabolomics
                                                                                                                                                                                    1. Metabolite Profiling
                                                                                                                                                                                      1. Metabolic Pathway Analysis
                                                                                                                                                                                        1. Biomarker Discovery
                                                                                                                                                                                        2. Epigenomics
                                                                                                                                                                                          1. ChIP-Seq Analysis
                                                                                                                                                                                            1. Bisulfite Sequencing
                                                                                                                                                                                              1. ATAC-Seq
                                                                                                                                                                                            2. Comparative Genomics
                                                                                                                                                                                              1. Homology Identification
                                                                                                                                                                                                1. Ortholog Detection
                                                                                                                                                                                                  1. Paralog Identification
                                                                                                                                                                                                    1. Homology Inference
                                                                                                                                                                                                    2. Synteny Analysis
                                                                                                                                                                                                      1. Conserved Gene Order
                                                                                                                                                                                                        1. Chromosomal Rearrangements
                                                                                                                                                                                                          1. Evolutionary Breakpoints
                                                                                                                                                                                                          2. Genome Evolution Studies
                                                                                                                                                                                                            1. Gene Family Evolution
                                                                                                                                                                                                              1. Whole Genome Duplications
                                                                                                                                                                                                                1. Horizontal Gene Transfer Detection

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                                                                                                                                                                                                            7. Population and Evolutionary Genetics

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                                                                                                                                                                                                            9. Applied Genetics and Genomics