Epigenomics and Hidden Markov Models in Computational Biology - Lecture 5
Offered By: Manolis Kellis via YouTube
Course Description
Overview
Syllabus
Logistics
Lecture Overview
Introduction to Epigenomics
Three types of Epigenomic Modifications
Q1: Non-standard modifications
Q2: Epigenetic inheritance
Q3: Developmental memory establishment
Diversity of Histone modifications
Methylation Bisulfite and DNase Profiling
Antibodies, ChIP-Seq, data generation projects, raw data
Read mapping: Hashing, Suffix Trees, Burrows-Wheeler Transform
Quality Control, Cross-correlation, Peak calling, IDR similar to FDR
Discovery and characterization of chromatin states
HMM Foundations, Generating, Parsing, Decoding, Learning
Two Sets of HMM parameters: Emissions, Transitions
Example 2-state HMM, observations, scoring, inference
Viterbi algorithm: Find best parse π*= argmaxπPx,π
Posterior Decoding: Most likely state πiover all paths
Summary
Taught by
Manolis Kellis
Related Courses
Natural Language ProcessingColumbia University via Coursera Bioinformatics Algorithms (Part 2)
University of California, San Diego via Coursera Finding Mutations in DNA and Proteins (Bioinformatics VI)
University of California, San Diego via Coursera Elaborazione del linguaggio naturale
University of Naples Federico II via Federica Dynamic Programming: Applications In Machine Learning and Genomics
University of California, San Diego via edX