'Sequence alignments' presentation slideshows

Database search and pairwise alignments

1.23k views • 112 slides

Pairwise Sequence Alignments

Pairwise Sequence Alignments. Bioinformatics. Some Bioinformatics Programming Terminology. Model. A model is a set of propositions or equations describing in simplified form some aspects of experience.

1.43k views • 67 slides

Sequence Alignments and Database Searching 08/20/07

Sequence Alignments and Database Searching 08/20/07. Protein A of interest to you. ornithine decarboxylase?. Why compare protein sequences?. Significant sequence similarities allow associations based upon known functions. Homology vs. similarity.

645 views • 49 slides

MCB 5472 Lecture #6: Sequence alignment March 27, 2014

MCB 5472 Lecture #6: Sequence alignment March 27, 2014. Sequence alignment. As you have seen, sequence alignment is key to nearly all experiments in molecular evolution Thus far we have discussed local alignment as implemented in BLAST Global alignment:

667 views • 47 slides

Multiple sequence alignment (MSA)

Multiple sequence alignment (MSA). Bioe C144/244 Fall 2010. Topics Covered. Uses of multiple sequence alignments (MSAs) Global, glocal and local alignments Structural vs sequence alignments Progressive, iterative and master-slave alignment methods ClustalW, MAFFT

847 views • 46 slides

Why so hard for Classical Marine Biologists and Microbiologists?

The Sorcerer II Global Ocean Sampling Expedition: Metagenomic Characterization of Viruses within Aquatic Microbial Samples

536 views • 46 slides

August 26, 2009 Biochemistry 201 Thang Chiu, MEB 7E1, x2024

Sequence Alignments and Database Searching. August 26, 2009 Biochemistry 201 Thang Chiu, MEB 7E1, x2024. Adapted from DKW lecture. Protein A of interest to you. ornithine decarboxylase?. Why compare protein sequences?.

502 views • 42 slides

Aug 27, 2008 Biochemistry 111 Thang Chiu, MEB 7E1, x2024

Sequence Alignments and Database Searching. Aug 27, 2008 Biochemistry 111 Thang Chiu, MEB 7E1, x2024. Adapted from DKW lecture. Protein A of interest to you. ornithine decarboxylase?. Why compare protein sequences?.

583 views • 42 slides

Viral Genomics

Viral Genomics. Allie Evans Colin Lappala Chelsea Layes Sheena Scroggins. The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, et al.

521 views • 42 slides

Aug 27, 2008 Biochemistry 111 Thang Chiu, MEB 7E1, x2024

Sequence Alignments and Database Searching. Aug 27, 2008 Biochemistry 111 Thang Chiu, MEB 7E1, x2024. Adapted from DKW lecture. Protein A of interest to you. ornithine decarboxylase?. Why compare protein sequences?.

542 views • 42 slides

Pairwise sequence alignments

Pairwise sequence alignments. Dynamic programming (Needleman-Wunsch), finds optimal alignment Heuristics: Blast (Altschul et al) does not guarantee finding optimal alignment, but fast. Pairwise sequence alignments. AP L F V A ---- ITRS DD AP V F I A GDTR ITRS EE Assumptions:

691 views • 41 slides

August 25, 2010 Biochemistry 201 David Worthylake, 7152 MEB, x5176

Sequence Alignments and Database Searching. August 25, 2010 Biochemistry 201 David Worthylake, 7152 MEB, x5176. Protein A of interest to you. ornithine decarboxylase?. Why compare protein sequences?. Significant sequence similarities allow associations based upon known functions.

470 views • 40 slides

August 25, 2010 Biochemistry 201 David Worthylake, 7152 MEB, x5176

Sequence Alignments and Database Searching. August 25, 2010 Biochemistry 201 David Worthylake, 7152 MEB, x5176. Protein A of interest to you. ornithine decarboxylase?. Why compare protein sequences?. Significant sequence similarities allow associations based upon known functions.

477 views • 40 slides

Sequence Alignments Some key terms and concepts : Indel (insertion and deletion)

Sequence Alignments Some key terms and concepts : Indel (insertion and deletion) Pairwise sequence alignment ( eg . Blast) versus multiple sequence alignment ( eg . Clustal ) Scoring models and matrices (applies to both amino-acid and nucleotide sequences)

567 views • 32 slides

Amino Acids 1/29/2003

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Computational Biology or Bioinformatics

Computational Biology or Bioinformatics. ability to rapidly sequence DNA has led to large databases development of new algorithms data analysis and interpretation similar concepts also applied to epidemiological databases genetic epidemiology evolutionary genetics

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Practical Bioinformatics

Practical Bioinformatics. By: Dr David P Kateete , Makerere College of Health Sciences. Bioinformatics. Molecular biology Flow/function of biological information (life) in living things (classical experiments) Bioinformatics

220 views • 14 slides

Protein Evolution and Sequence Analysis

Protein Evolution and Sequence Analysis. Central Premise. Significant sequence similarity allows one to assign function to an unknown protein(s) based on properties of known proteins and is a direct consequence of evolutionary relationships.

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Geobacter

Investigating a potential mechanism of Mercury Uptake in Geobacter sulfurreducens. Geobacter. Geobacter sulfurreducens PCA chromosome. 1463922. 1468286. Heavy Metal Binding Domain containing protein. ABC Transporter Permease. CxxC motif. Graphic from NCBI database.

404 views • 7 slides

NBLAST cluster variant of BLAST for NxN comparisons

NBLAST cluster variant of BLAST for NxN comparisons. Michel Dumontier Ph.D. Biochemistry (candidate) micheld@mshri.on.ca. Samuel Lunenfeld Research Institute, Mt. Sinai Hospital Department of Biochemistry, University of Toronto Toronto, Ontario, Canada. NBLAST. Motivation

160 views • 7 slides