'Smith waterman' presentation slideshows

Doug Brutlag Professor Emeritus Biochemistry & Medicine (by courtesy)

828 views • 71 slides

Pairwise Alignments and Database Searches: Algorithms

706 views • 55 slides

Previous Lecture: Descriptive Statistics

Previous Lecture: Descriptive Statistics. Normal. Skewed. Long tails. Complex. This Lecture. Introduction to Biostatistics and Bioinformatics Sequence Alignment Concepts. Sequence Alignment. Stuart M. Brown, Ph.D. Center for Health Informatics and Bioinformatics NYU School of Medicine.

881 views • 52 slides

Pairwise sequence Alignment

637 views • 49 slides

Doug Szajda Mike Pohl * Jason Owen Barry Lawson

Toward a Practical Data Privacy Scheme for a Distributed Implementation of the Smith-Waterman Genome Sequence Comparison Algorithm. Doug Szajda Mike Pohl * Jason Owen Barry Lawson. 1. Large-Scale Distributed Computations. Easily parallelizable, compute intensive

472 views • 39 slides

A new approach to protein structure prediction

542 views • 38 slides

A practical approach

DB Web addresses. A practical approach. Searching the primaries. Searching the secondaries. Significance of database matches. Software Web addresses. Why Search Databases?. To find out if a new DNA sequence already is deposited in the databanks.

510 views • 38 slides

Probability Theory and Basic Alignment of String Sequences

Probability Theory and Basic Alignment of String Sequences. Chapter 1.1-2.3. Overview. Probability Theory -Maximum Likelihood -Bayes Theorem Pairwise Alignment -The Scoring Model -Alignment Algorithms. Probability Theory. Probability Theory. What is a probabilistic model?

497 views • 33 slides

ILRI/BECA Bioinformatics Platform Introduction

ILRI/BECA Bioinformatics Platform Introduction. Etienne de Villiers ILRI - Kenya. Outline. ILRI/BECA Bioinformatics Platform Hardware Specialized software: Database searching Assembly software CGIAR Bioinformatics Grid. International Livestock Research Institute.

437 views • 32 slides

Dynamic Programming

483 views • 29 slides

Database Searching for Similar Sequences

Database Searching for Similar Sequences. Search a sequence database for sequences that are similar to a query sequence provide a list of database sequences with which the query sequence can be aligned well Key issue: efficiency. Database Searching for Similar Sequences Methods.

377 views • 25 slides

Database Searching for Similar Sequences

Database Searching for Similar Sequences. Search a sequence database for sequences that are similar to a query sequence provide a list of database sequences with which the query sequence can be aligned well Key issue: efficiency. Database Searching for Similar Sequences Methods.

399 views • 25 slides

Rationale for searching sequence databases

Rationale for searching sequence databases. June 25, 2003 Writing projects due July 11 Learning objectives- FASTA and BLAST programs. Psi-Blast Workshop-Use of Psi-BLAST to determine sequence similarities. Use BLASTx to gain information on gene structure. FASTA (Pearson and Lipman 1988).

413 views • 23 slides

Developing Pairwise Sequence Alignment Algorithms

Developing Pairwise Sequence Alignment Algorithms. Dr. Nancy Warter-Perez May 20, 2003. Outline. Group assignments for project Overview of global and local alignment References for sequence alignment algorithms Discussion of Needleman-Wunsch iterative approach to global alignment

355 views • 22 slides

Novo-G : Adaptively Custom Reconfigurable Supercomputer

Novo-G : Adaptively Custom Reconfigurable Supercomputer. Dr. Alan D. George Professor of ECE University of Florida Dr. Herman Lam Assoc. Professor of ECE University of Florida. Abhijeet Lawande Carlo Pascoe Research Assistants CHREC University of Florida. December 3-4, 2009.

338 views • 21 slides

Developing Pairwise Sequence Alignment Algorithms

Developing Pairwise Sequence Alignment Algorithms. Dr. Nancy Warter-Perez May 13, 2004. Outline. Group assignments for project Overview of global and local alignment References for sequence alignment algorithms Discussion of Needleman-Wunsch iterative approach to global alignment

406 views • 21 slides

PatternHunter II: Highly Sensitive and Fast Homology Search

Bioinformatics and Computational Molecular Biology (Fall 2005): Representation. PatternHunter II: Highly Sensitive and Fast Homology Search. Ming Li, Bin Ma Derek Kisman, John Tromp. R94922059 ???. Overview. Homology search Local alignment algorithms PH I PH II Multiple Spaced Seeds

369 views • 18 slides

281 views • 17 slides

BLAST & GenBank

BLAST & GenBank. Jeremy Badgett. Using computers for Genomic reference and research. Computers offer Biologist a tool to use in their ever expanding kit of Molecular techniques

251 views • 15 slides

CISC 667 Intro to Bioinformatics (Fall 2005) Pairwise sequence alignment

CISC 667 Intro to Bioinformatics (Fall 2005) Pairwise sequence alignment. Smith-Waterman (local alignment). s 1. s 2. s 3. Local pairwise optimal alignment why need local alignment (vs global)?

185 views • 8 slides