Methods designing multiple mRNA transcript nucleic acid probe sequences for use in nucleic acid arrays
First Claim
1. A method of identifying a nucleic acid sequence for a substrate surface immobilized probe for two or more different mRNA transcripts encoded by the same genomic coding sequence, said method comprising:
- (a) selecting at least one consensus sequence for said two or more different mRNA transcripts that are transcribed from said same genomic coding sequence;
(b) identifying a plurality of candidate sequences for said at least one consensus sequence; and
(c) choosing a probe sequence from said plurality to identify said nucleic acid sequence for said substrate surface immobilized probe.
1 Assignment
0 Petitions
Accused Products
Abstract
Methods of identifying a sequence of a nucleic acid that is suitable for use as a surface immobilized probe for two or more mRNA transcripts encoded by the same gene are provided. In practicing the subject methods, a consensus region for the two or more transcripts is first identified, and this identified consensus region is then employed to identify the suitable nucleic acid sequence, e.g., by using a probe design protocol. The subject invention also includes algorithms for performing the subject methods recorded on a computer readable medium, as well as computational analysis systems that include the same. Also provided are nucleic acid arrays produced with probes having sequences identified by the subject methods, as well as methods for using the same.
-
Citations
19 Claims
-
1. A method of identifying a nucleic acid sequence for a substrate surface immobilized probe for two or more different mRNA transcripts encoded by the same genomic coding sequence, said method comprising:
-
(a) selecting at least one consensus sequence for said two or more different mRNA transcripts that are transcribed from said same genomic coding sequence; (b) identifying a plurality of candidate sequences for said at least one consensus sequence; and (c) choosing a probe sequence from said plurality to identify said nucleic acid sequence for said substrate surface immobilized probe. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19)
-
Specification