791_cb_lecture1

791_cb_lecture1 - 7.91 / 7.36 / BE.490 Lecture #1 Feb. 24,...

Info iconThis preview shows pages 1–11. Sign up to view the full content.

View Full Document Right Arrow Icon

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
This is the end of the preview. Sign up to access the rest of the document.

Unformatted text preview: 7.91 / 7.36 / BE.490 Lecture #1 Feb. 24, 2004 Genome Sequencing & DNA Sequence Analysis Chris Burge What is a Genome? A genome is NOT a bag of proteins What’s in the Human Genome? Outline of Unit II: DNA/RNA Sequence Analysis Reading* 2/24 2/26 3/2 M Ch. 4 3/4 M Ch. 4 3/9 DNA Sequence Evolution 3/11 RNA Structure Prediction & Applications M Ch. 5 3/16 Literature Discussion TBA Genome Sequencing & DNA Sequence Analysis M Ch. 3 DNA Sequence Comparison & Alignment M Ch. 7 DNA Motif Modeling & Discovery Markov and Hidden Markov Models for DNA M Ch. 6 * M = Mount, “Bioinformatics: Sequence and Genome Analysis” Feedback to Instructor Examples from past years: • Comic font looks stupid • Burge uses too much genomics jargon • Better synergy between Yaffe/Burge sections • Asks questions to the class, student answers, but I didn’t hear/understand the answer… DNA vs Protein Sequence Analysis Protein Sequence Analysis DNA Sequence Analysis - emphasis on chemistry - emphasis on regulation - protein structure - RNA structure - selection is everywhere - signal vs noise ( statistics ) - multiple alignment - motif finding - comparative proteomics - comparative genomics - data: O(10^8) aa - data: O(10^10) nt Read your probability/statistics primer! Genome Sequencing & DNA Sequence Analysis • The Language of Genomics • Shotgun Sequencing • DNA Sequence Alignment I • Comparative Genomics Examples - Progress: genomes, transcriptomes, etc. - How to choose a mismatch penalty - PipMaker, Phylogenetic Shadowing Recent Media Attention Genomespeak Bork, Peer, and Richard Copley. " Genome Speak." Nature 409 (15 February 2001): 815. Learn to speak genomic In the following article, note the use of the following genomic terms: euchromatic, whole-genome shotgun sequencing, sequence reads, 5.11-fold coverage, plasmid clones, whole-genome assembly, regional chromosome assembly....
View Full Document

This note was uploaded on 11/11/2011 for the course BIO 20.410j taught by Professor Rogerd.kamm during the Spring '03 term at MIT.

Page1 / 27

791_cb_lecture1 - 7.91 / 7.36 / BE.490 Lecture #1 Feb. 24,...

This preview shows document pages 1 - 11. Sign up to view the full document.

View Full Document Right Arrow Icon
Ask a homework question - tutors are online