GEP Tools | NCBI BLAST

BLAST is a powerful tool used in the annotation of organisms both new and old. In this video, D'Andrew Harrington, a TA for the GEP, will discuss using BLAST to locate orthologous genes and identify their genomic neighborhoods. This video is focused on students working on annotations through the GEP. -- Gene Examined: Target Species: Drosophila yakuba Target Gene: Pten (Phosphatase and tensin homolog) Chapter Markers: 0:00 - Part I: Introduction 1:10 - Part II: How do we get to BLAST? 12:00 - Part III: Our first question (locating the ortholog of a gene) 19:20 - Part IV: Reading our initial results 30:11 - Part V: Interpreting our results to the GEP UCSC Genome Browser 40:31 - Part VI: RefSeq BLASTing and our genomic neighborhood 53:54 - Part VII: Concluding results and confirming the neighborhood Links used in video (in chronological order): 1.) GEP website: https://thegep.org 2.) NCBI BLAST: https://blast.ncbi.nlm.nih.gov/Blast.cgi 3.) Genome Assemblies: https://gander.wustl.edu/~wilson/pathways-project-tools/index.html 4.) Gene Record Finder: https://gander.wustl.edu/~wilson/dmelgenerecord/index.html 5.) GEP UCSC Genome Browser: http://gander.wustl.edu/cgi-bin/hgGateway -- Spanish subtitles provided by REV.com and reviewed Mateo Antonio Lopez, GEP Virtual TA and biology student at Mount Saint Mary College, NY. -- Follow us on Twitter: https://twitter.com/GEP_CURE --