Question

Which of the given statements is incorrect about Searching for orthologs to a protein family in an EST database?

(a) Searches of EST databases for matches to a query sequence routinely produce minimal amounts of output that must be searched manually for significant hits

(b) ESTs with a high percent identity with the query sequence, a long alignment with the query sequence, and a very low E value of the alignment score represent groups of paralogous and orthologous genes

(c) To identify orthologs as the most closely related sequence, ESTs were aligned using the amino acid alignment as a guide

(d) To identify orthologs as the most closely related sequence, a phylogenetic tree was produced by the maximum likelihood method

The question was asked in examination.

The origin of the question is Comparative Genomics topic in section Collecting & Storing Sequences in Laboratory of Bioinformatics

Answer 1

Correct choice is (a) Searches of EST databases for matches to a query sequence routinely produce minimal amounts of output that must be searched manually for significant hits

The explanation: The Searches of EST databases for matches to a query sequence routinely produce large amounts of output that must be searched manually for significant hits.  an automatic method was described in 1999 utilizing a computer script, FAST-PAN, that scans EST databases with multiple queries from a protein family, sorts the alignment scores, and produces charts and alignments of the matches found.