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BLAST

BLAST. Using BLAST for searching DNA sequences BiRG@IUSE. BLAST DNA – An Overview. DNA is a nucleic acid containing genetic instructions String of nucleotides 4 bases make up the genetic code – ATGC ATGC is the DNA ‘alphabet’ Structure is the ‘double helix’. BLAST DNA – An Overview cont.

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BLAST

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  1. BLAST Using BLAST for searching DNA sequences BiRG@IUSE

  2. BLASTDNA – An Overview • DNA is a nucleic acid containing genetic instructions • String of nucleotides • 4 bases make up the genetic code – ATGC • ATGC is the DNA ‘alphabet’ • Structure is the ‘double helix’

  3. BLASTDNA – An Overview cont. • Transcription  Translation • Transcription • A copy of a DNA section is made – RNA • Translation • Proteins are synthesized from the RNA instructions

  4. BLASTOverview • Basic Local Alignment Search Tool • http://www.ncbi.nlm.nih.gov/BLAST/ • Profile can be created • Searches can be saved for later use • Searches can be shared • Several databases and genomes available

  5. BLASTSearch • Find regions of DNA sequence similarity • Searches range from simple to complex • Several different genomes to search • Supports custom queries, such as Entrez • Scores results based on similarity

  6. BLASTBasic Searches • Types of searches • Nucleotide • Protein • Blastx • Tblastn • Tblastx

  7. BLASTBasic Search - Protein • Select protein blast • Enter protein string in Query Sequence • Protein alphabet – 20 ‘character’ based on amino acids • A, C, D, E, F, G, H, I, K, L, M, N, P, Q, R, S, T, V, W, Y • Provide Job Title if desired • Select a Search Set • Query can be run, or additional options set

  8. BLASTProtein search results • Cut to Dr. Ramachandran

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