'Substitution matrix' presentation slideshows

Bioinformatics Algorithms and Data Structures

Bioinformatics Algorithms and Data Structures. Probabilistic Approaches to Phylogeny Lecturer: Dr. Rose Slides by: Dr. Rose April 24, 2003. Probabilistic Approaches to Phylogeny. Principal Goal: rank trees according to: Their likelihood P (data|tree) or

935 views • 77 slides

CS 5263 Bioinformatics

746 views • 61 slides

Construction of Substitution matrices BLOSUM BLO CKS SU BSTITUTION M ATRIX PAM

Construction of Substitution matrices BLOSUM BLO CKS SU BSTITUTION M ATRIX PAM P OINT A CCEPTED M UTATIONS. Substitution matrices

863 views • 55 slides

Scoring a multiple alignment

Scoring a multiple alignment. A. A. A. A. C. A. C. A. C. A. C. C. A. C. A. Sum of pairs. Star. Tree. A. AAA AAA AAA AA C A CC. A. C. A. A. A. A. A. A. A. C. 10 ?. + (6 ? - 4 ? ). + (4 ? - 6 ? ). A. A. A. C. Sum of Pairs. = 20 ? - 10 ?.

524 views • 44 slides

Multiple Sequence Alignment

Multiple Sequence Alignment. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Sep 19 th , 2013. Key concepts. The Multiple Sequence Alignment (MSA) Problem The need for MSA Scoring Multiple Sequence Alignments Heuristic Algorithms for MSA Progressive alignment

1.24k views • 43 slides

Large scale genomes comparisons Bioinformatics aspects (Introduction)

Large scale genomes comparisons Bioinformatics aspects (Introduction). Fredj Tekaia Institut Pasteur tekaia@pasteur.fr. EMBO Bioinformatic and Comparative Genome Analysis Course Institut Pasteur Paris June 27 - July 9, 2011.

526 views • 40 slides

????

????. 2010.11.4 Written By ???. Outline. ???? ?? Pairwise alignment/Multiple Sequence Alignment dot-matrix representation Needleman- wunsch algorithm Smith-Waterman algorithm PAM BLOSUM. ????? ??. ?????? ??? ?? ?? - ? ??? ??? ??? ??? , ???? ???

613 views • 38 slides

Introduction to the theory of sequence alignment

Introduction to the theory of sequence alignment. Yves Moreau Master of Artificial Intelligence Katholieke Universiteit Leuven 2003-2004. References.

461 views • 38 slides

MoBIoS A Metric-space DBMS to Support Biological Discovery Presenter: Enohi I. Ibekwe

MoBIoS A Metric-space DBMS to Support Biological Discovery Presenter: Enohi I. Ibekwe. Overview. MoBIoS Project Motivation The challenge Established similarity measures Metric-space distance measure Disk-based metric tree index MoBIoS as a DBMS Application of MoBIoS. MoBIoS Project.

504 views • 36 slides

Stochastic Markov Processes and Bayesian Networks

Stochastic Markov Processes and Bayesian Networks. Aron Wolinetz. Bayesian or Belief Network. A probabilistic graphical model that represents a set of random variables and their conditional dependencies via a directed acyclic graph (DAG). Will my student loan get funded? . Bayesian Networks.

544 views • 35 slides

Scoring matrices

1.33k views • 34 slides

Biocomputation : Comparative Genomics

410 views • 29 slides

A lignment Class III

440 views • 29 slides

Sequence analysis Part 2. Finding optimal alignments with dynamical programming

Introduction to Bioinformatics. Sequence analysis Part 2. Finding optimal alignments with dynamical programming. Example of gapless alignment. TTGCGGT | 1 TTAGCCGT. TTGCGGT |--|-- 2 TTAGCCGT. TTGCGGT --|- 1 TTAGCCGT. TTGCGGT --- 0

338 views • 24 slides

Compositionally Adjusted Substitution Matrices for Protein Database Searches

336 views • 23 slides

Approximate Similarity Search in Genomic Sequence Databases using Landmark-Guided Embedding

Approximate Similarity Search in Genomic Sequence Databases using Landmark-Guided Embedding. Ahmet Sacan and I. Hakki Toroslu email: [ ahmet,toroslu ]@ ceng.metu.edu.tr Computer Engineering Department, Middle East Technical University Ankara, TURKEY. Outline. Background Sequence Alignment

323 views • 20 slides

Sequence comparison: Introduction and motivation

Sequence comparison: Introduction and motivation. Genome 559: Introduction to Statistical and Computational Genomics Prof. James H. Thomas. Logistics. Syllabus and web site: Should I take this class ? Grading Send homework by email ATTACHMENT.

261 views • 20 slides

Scoring the Alignment of Amino Acid Sequences

Scoring the Alignment of Amino Acid Sequences. Constructing PAM and Blosum Matrices. Quotes from page 11 of our Lab Manual:. Proteins are huge molecules made up of large numbers of amino acids. The proteins are usually 100 to 500 amino acids long

419 views • 19 slides

Sequence Alignments In Bioinformatics Lecture by: Ms AQSAD RASHDA

Sequence Alignments In Bioinformatics Lecture by: Ms AQSAD RASHDA. Sequence Analysis. Comparative Analysis Sequence alignment Pairwise alignments Multiple alignments. THE EVOLUTIONARY BASIS OF SEQUENCE ALIGNMENT. Similarity Homology

393 views • 14 slides

Genome information GenBank (Entrez nucleotide) Species-specific databases

Protein databases. Most of these databases can be accessed by : Sequence identifier Keywords BLAST. 3D structure visualization Protein workshop Swiss PDBViewer. ex2. Translation. ?. Protein structure Protein Data Bank (PDB). Genome information GenBank (Entrez nucleotide)

364 views • 10 slides