Learn to use the ClustalW2 resource at the EBI Toolbox site for performing multiple sequence alignments, or MSA. MSA allow us to analyze the evolutionary relationship between species on a molecular sequence level. As well, multiple sequence alignments can help us to identify functionally important positions in a sequence family by simply looking at the conservation of positions or motifs within the sequence data.
You will learn:
This tutorial is a part of the tutorial group Alignment and comparison resources. You might find the other tutorials in the group interesting:
BLAST: Basic Local Alignment and Search Tool
FASTA: FASTA sequence algorithm
Entrez Gene: NCBI's Entrez tool for gene-centric information
Primer3: Pick primers from a DNA sequence.
DCODE: DCODE.org Comparative Genomics Developments, a collection of powerful comparative genomics tools
VISTA: Tools for Comparative Genomics
RefSeq: Provides molecular sequence records to help locate gene and protein data.
EBI : This category includes all resources maintained at the European Bioinformatics Institute (EBI)
Algorithms and Analysis : This category contains various tools that may help perform analysis of different genomics data types. This may include sequence alignment, large-scale or complex queries, motif finding, or comparative assessments.
What's the Answer? (publication quality alignment images): This week's highlighted question is from the Bioinformatics subreddit. And I'm using it because it made me laugh. I dare someone to name their alignment tool "Fancy Pants". That said, it did provide li...
Video Tip of The Week: Jalview for multiple sequence alignment editing and visualization: The multiple sequence alignment editing question recently on our What's the Answer? feature was popular. We have covered MSA editors in the past, and we include a bit on Jalview in our Clustal tutorial...
Otto West: Apes don't read [genomics]: Otto West: Apes don't read philosophy. Wanda: Yes they do, Otto. They just don't understand it. --A Fish Called Wanda Some of you remember that last year we were treated to a strange case of DNA denial...
Tip of the Week: Tweaking those alignments: This week's tip introduces a nice feature and tool of the Viral Bioinformatics Resource Center (VBRC). There are a lot of great tools at the VBRC to search and analyze hundreds of viral genomes. Most, ...
Recent BioMed Central research articles citing this resource
Zhang Xiao-Xuan et al., The presence of Giardia intestinalis in donkeys, Equus asinus , in China. Parasites Vectors (2017) doi:10.1186/s13071-016-1936-0
Matassi Giorgio et al., Horizontal gene transfer drives the evolution of Rh50 permeases in prokaryotes Phylogenetics and phylogeography. BMC Evolutionary Biology (2017) doi:10.1186/s12862-016-0850-6
Seol Bomin et al., Sequence conservation of Plasmodium vivax glutamate dehydrogenase among Korean isolates and its application in seroepidemiology. Malaria Journal (2017) doi:10.1186/s12936-016-1653-3
Wang Chih-Li et al., Identification and trichothecene genotypes of Fusarium graminearum species complex from wheat in Taiwan Phylogenetics. Botanical Studies (2017) doi:10.1186/s40529-016-0156-4
Sheng Lili et al., Development and implementation of rapid metabolic engineering tools for chemical and fuel production in Geobacillus thermoglucosidasius NCIMB 11955. Biotechnology for Biofuels (2017) doi:10.1186/s13068-016-0692-x