Introduction to Bioinformaticshttp://www.sdsc.edu/~helgew/bioinform/

Course Schedule

Course Schedule [2]

What do we do with all the data?

Database - A Narrow Definition

Database - Broader Definition

Database - Examples

Database - Examples [2]

The DB tool box

General DB data models

Creating specific RDB Models

Normalization [2]

Normalization [3]

Normalization [4]

Formal Normalization

to normalize or not to normalize….?

Finalizing the data model

Data Definition Languages

SQL - 1 page basics

The Protein Data Bank

The Protein Data Bank

PDB Content Statistics

PDB Content Statistics (cont.)

PDB - A Small Part of A Big Picture

PDB file format

PDB file format [2]

mmCIF file format

mmCIF file format [2]

mmCIF file format [3]

Functionality Overview

The Needle And How To Find It

Structure Alignment

What’s the Problem?

Algorithm Terminology

Two Main Issues

Similarity Measures

RMSD

Optimization Algorithms Used

Statistical Significance