An all-against-all analysis requires first making a database of the proteome. This database is then sequentially searched by each individual protein sequence of the proteome using a rapid database similarity search tool such as _______(a) XPBLAST(b) WU-BLAST(c) BLAST(d) FASTAThis question was posed to me during an interview.My doubt stems from Sequence Assembly and Gene Identification in chapter Collecting & Storing Sequences in Laboratory of Bioinformatics

An all-against-all analysis requires first making a database of the pr

1.	An all-against-all analysis requires first making a database of the proteome. This database is then sequentially searched by each individual protein sequence of the proteome using a rapid database similarity search tool such as _______(a) XPBLAST(b) WU-BLAST(c) BLAST(d) FASTAThis question was posed to me during an interview.My doubt stems from Sequence Assembly and Gene Identification in chapter Collecting & Storing Sequences in Laboratory of Bioinformatics
Answer» Right choice is (a) XPBLAST The EXPLANATION: P values of WU-BLAST are similar to E values of NCBI BLAST (Rubin et al. 2000) for values of P and E < 0.05. This analysis generates a matrix of alignment scores, each with an E value and CORRESPONDING alignment for each pair of proteins. Also, the E value of an alignment score is the probability that an alignment score as good as the ONE found WOULD be observed between two random or unrelated sequences in a search of a database of the same size.

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