TCS: A new multiple sequence alignment reliability measure - Description

Jia Ming Chang Paolo Di Tommaso and Cedric Notredame TCS A new multiple sequence alignment reliability measure to estimate alignment accuracy and improve phylogenetic tree reconstruction ID: 244621 Download Presentation

Similar presentations

Homologues finding and Multiple Sequence Alignment

Maya Schushan. November 2010. Outline- introduction to alignments. 1. . Introduction. 4. Pairwise Alignment:. Smith-Waterman. Needlman-Wunch. 5. Multiple Sequence Alignment:. ClustalW. MUSCLE. T-coffee.

Multiple Sequence Alignment

Scott Walmsley, PhD. Research Instructor, Department Pharmaceutical Sciences. Skaggs School of Pharmacy. Outline . What is and why perform Multiple . S. equence . A. lignment (MSA)?. Pre-requisite knowledge.

Multiple Sequence Alignments

and Sequence Profiles. Multiple sequence alignment. Generalize our pairwise alignment of sequences to include . more than two. homologous proteins.. Looking at more than two sequences gives us . much more information.

New Multiple Sequence Alignment Methods

Tandy Warnow. The Department of Computer Science. The University of Texas at Austin. The “Tree of Life”. Avian Phylogenomics Project. G Zhang, . BGI. . Approx. 50 species, whole genomes. 8000+ genes, UCEs.

Multiple alignment

The linear comparison of more than two sequences. Places residues in columns . per . position specific similarity scores . reflects . relationships . of the . sequences. the scores are based on .

Multiple alignment The linear comparison of more than two sequences

Places residues in columns . per . position specific similarity scores . reflects . relationships . of the . sequences. the scores are based on . indels. (gaps) and substitutions.. The alignment of residues implies that they have similar roles in the proteins or DNA sequences being aligned .

Reliability & Validity

Jamie DeLeeuw, Ph.D.. 5/7/13. Reliability. Consistency of measurement. The measure itself is dependable.. ***A measure must be reliable to be valid!***. High reliability = greater consistency = lower randomness (error).

“Homology-enhanced probabilistic consistency” multiple

a case study on transmembrane protein. Jia-Ming Chang. 2013-July-09. Chang, J-M, P Di Tommaso, J-. Fß. Taly, C Notredame. 2012. Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee. BMC Bioinformatics 13..

Multiple Sequence Alignment Methods

Tandy Warnow. Departments of Bioengineering and Computer Science. http://. tandy.cs.illinois.edu. O. r. a. ngut. a. n. G. orilla. Chimpanze. e. H. uma. n. F. r. om . the. . T. r. ee. . of. . the. L.

Robert Edgar

Independent scientist. robert@drive5.com. www.drive5.com. Multiple . alingnment. and database search. Multiple alignment in 16S world. Curated. 16S multiple alignments:. RDP. SILVA. Greengenes. MSA methods for 16s:.

73K - views

TCS: A new multiple sequence alignment reliability measure

Published bymarina-yarberry

Jia. -Ming Chang, Paolo Di . Tommaso. , and Cedric . Notredame. TCS. : A new multiple sequence alignment reliability measure to estimate alignment accuracy and improve phylogenetic tree . reconstruction, .

Tags : alignment tcs msa score tcs alignment score msa sequence alignments multiple tree level mafft coffee seq library lib consistency

Embed :

Presentation Download Link

Download Presentation - The PPT/PDF document "TCS: A new multiple sequence alignment r..." is the property of its rightful owner. Permission is granted to download and print the materials on this web site for personal, non-commercial use only, and to display it on your personal computer provided you do not modify the materials and that you retain all copyright notices contained in the materials. By downloading content from our website, you accept the terms of this agreement.