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Basic Local Alignment and Search Tool

Tutorial and training materials by OpenHelix

Learn to use BLAST, (Basic Local Alignment and Search Tool), the sequence similarity searching tool from the National Center for Biotechnology Information (NCBI) at NIH. You can use BLAST to find sequences similar to your nucleotide or protein sequences. There are also a variety of specialized BLAST programs available, including Primer-BLAST, VecScreen, SNP BLAST options, multiple alignment tools, and more. You can easily compare 2 sequences to each other. These can provide invaluable information in your quest to infer functional and taxonomic relationships for known or unknown sequences, or to further design experiments.
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You'll learn:

  • how to do basic nucleotide and protein BLAST searches
  • how to interpret and save your BLAST results
  • how to manipulate your data for easy analysis and visualization
  • to customize and save your searches and results with My NCBI
  • to use some of the specialized BLAST tools for multiple alignments and SNP analysis


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Recent BioMed Central research articles citing this resource

Endimiani Andrea et al., Characterization of Neisseria gonorrhoeae isolates detected in Switzerland (1998–2012): emergence of multidrug-resistant clones less susceptible to cephalosporins Sexually transmitted diseases. BMC Infectious Diseases (2014) doi:10.1186/1471-2334-14-106

Rubio-Moraga Angela et al., Apical dominance in saffron and the involvement of the branching enzymes CCD7 and CCD8 in the control of bud sprouting Development and cell biology. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-171

Alegría Ángel et al., The genome of Bifidobacterium pseudocatenulatum IPLA 36007, a human intestinal strain with isoflavone-activation activity. Gut Pathogens (2014) doi:10.1186/1757-4749-6-31

Nowak Marta et al., Characterization of single-stranded DNA-binding proteins from the psychrophilic bacteria Desulfotalea psychrophila Flavobacterium psychrophilum Psychrobacter arcticus Psychrobacter cryohalolentis Psychromonas ingrahamii Psychroflexus torquis, and Photobacterium profundum Microbial genetics, genomics and proteomics. BMC Microbiology (2014) doi:10.1186/1471-2180-14-91

Banerjee Atoshi et al., Human protein Staufen-2 promotes HIV-1 proliferation by positively regulating RNA export activity of viral protein Rev. Retrovirology (2014) doi:10.1186/1742-4690-11-18

More about the resource:

BLAST is a key resource developed and supported by the National Center for Biotechnology Information (NCBI). Sequence submissions from around the world help to populate NCBI's Genbank database, to which novel sequences can be compared using BLAST. BLAST results are linked to the vast NCBI Entrez network of databases allowing for a rich resource for discovery.


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The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
Copyright 2009, OpenHelix, LLC.

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