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
Polseela Raxsina et al., Description of Sergentomyia phadangensis n. sp. (Diptera, Psychodidae) of Thailand. Parasites Vectors (2016) doi:10.1186/s13071-016-1300-4
Moya Aurelie et al., Functional conservation of the apoptotic machinery from coral to man: the diverse and complex Bcl-2 and caspase repertoires of Acropora millepora Comparative and evolutionary genomics. BMC Genomics (2016) doi:10.1186/s12864-015-2355-x
Jiang Shuang et al., Isolation and characterization of putative functional long terminal repeat retrotransposons in the Pyrus genome. Mobile DNA (2016) doi:10.1186/s13100-016-0058-8
Liew Wee Kent Jonathan et al., Diagnosis of an imported Plasmodium ovale wallikeri infection in Malaysia. Malaria Journal (2016) doi:10.1186/s12936-015-1070-z
Lu Xinli et al., HIV-1 genetic diversity and its distribution characteristics among newly diagnosed HIV-1 individuals in Hebei province, China. AIDS Research and Therapy (2016) doi:10.1186/s12981-015-0087-2