Online Computational Biology Textbook

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Template With Guidelines Template

1. Introduction and Basic Molecular Biology
2. Basic Tools
1. Basic HTML
2. Basic Python
3. Basic R
4. Basic Bioconductor
3. Literature Retrieval and Mining
4. Sequence Alignment
1. Pairwise Sequence Alignment and Substitution Matrices S1 Pairwise Sequence Alignment
2. Fast Sequence Similarity Search Algorithms S1 Substitution Matrices and Fast Sequence Similarity Search Algorithms
3. Multiple Sequence Alignment And Protein Motifs Jack Allen
4. Hidden Markov Model
5. Genome Sequencing and Annotation David Robinson Genome Sequencing and Assembly
5. Gene Expression
1. Gene Expression Microarrays and Experiments
2. Microarray Normalization and Gene Expression Index S1
3. Differential Gene Expression and Hypothesis Testing S1 + S2
4. Microarray Clustering Methods and Gene Ontology
5. Microarray Dimension Reduction Techniques S1 + S2
6. Microarray Classification Methods S1
6. Transcriptional Regulation
1. Transcription Regulation and Transcription Factor Motif Finding
2. System biology of transcription regulation
3. Expectation Maximization and Gibbs Sampling Nealia kuan
4. Phylogenetic Trees and Comparative Genomics Daniel Boada Comparative Genomics and Phylogenetic trees
5. ChIP-on-chip and Genome Tiling Microarrays Xiaohua Shen + S2
6. Epigenetic regulation Jacob Carlson + Josh Paulk
7. Transcription Regluatory Network S1
7. Post Transcriptional Regulation
1. RNA Folding S1
2. siRNA and miRNA James Cronican + S2
8. Proteomics
1. Protein Structure Prediction
2. Molecular Dynamics
3. Mass Spectrophotometry and Protein Interaction Networks S1
9. Genome Variations
1. SNPs, CNVs, and SNP chip S1 + S2 SNPs and Association Studies
2. Association Studies and Haplotype Inference S1 + S2 Haplotype Inference and SNP Chip

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