Download presentation
Presentation is loading. Please wait.
1
Introduction to Computational Biology Topics
2
Molecular Data Definition of data DNA/RNA Protein Expression Basics of programming in Matlab Vectors Matrices Loops Conditions Functions
3
Sequence Alignment Dot Plots Dynamic Programming global alignment local alignment K-tuple Methods Fasta Blast
4
Molecular Evolution Patterns of substitutions Synonymous vs. nonsynonymous Estimation of substitutions Jukes-Cantor model Kimura’s two-parameter model Molecular clock Relative rate test
5
Phylogenetics Homology: orthologs vs. paralogs Phylogenetic Trees Distance-based methods UPGMA Neighbor-joining Character-based methods Parsimony Tree confidence Bootstrapping
6
Genomics Genomic content Hidden Markov Models (HMMs): CpG islands Motif finding Gibbs Sampling Transcriptional factor binding sites Phylogenetic footprinting Vista Plot
7
Microarray Technology cDNA vs. oligo arrays Labeling Hybridization Scanning Analysis
8
Normalization and Quality Control Array normalization methods Global normalization Lowess normalization Quantile normalization Quality control Data distributions Histograms boxplots
9
Differential Gene Expression Experimental Design Replication Pooling Two-sample Comparisons Case-studies Single slides Replicate slides T-test and ANOVA P-values Adjusted p-values
10
Clustering Microarray Data Dissimilarity Measures Clustering Methods Hierarchical methods Partitioning methods K-means Self-organizing maps (SOMs)
11
Clustering Microarray Data Multivariate analysis Principal Components Analysis Singular Value Decomposition
12
Genetic Variation Alleles, frequencies, inheritance Population genetics: HWE SNPs: Single Nucleotide Polymorphisms Databases Patterns Analysis
13
QTL: Quantitative Trait Loci Complex diseases Haplotype Analysis Linkage Association
Similar presentations
© 2024 SlidePlayer.com Inc.
All rights reserved.