CONSTRUCTION OF A GENERALIZED CONSENSUS MATRIX FOR RECOGNITION OF VERTEBRATE PRE-MESSENGER-RNA 3'-TERMINAL PROCESSING SITES

Citation
Yv. Kondrakhin et al., CONSTRUCTION OF A GENERALIZED CONSENSUS MATRIX FOR RECOGNITION OF VERTEBRATE PRE-MESSENGER-RNA 3'-TERMINAL PROCESSING SITES, Computer applications in the biosciences, 10(6), 1994, pp. 597-603
Citations number
23
Categorie Soggetti
Mathematical Methods, Biology & Medicine","Computer Sciences, Special Topics","Computer Science Interdisciplinary Applications","Biology Miscellaneous
ISSN journal
02667061
Volume
10
Issue
6
Year of publication
1994
Pages
597 - 603
Database
ISI
SICI code
0266-7061(1994)10:6<597:COAGCM>2.0.ZU;2-B
Abstract
Using a set of sequences of 63 cleavage/polyadenylation sites of verte brate pre-mRNA, a generalized consensus matrix was constructed. The el ements of the matrix were the absolute frequencies of oligonucleotides of length l at the ith position of sites. The cleavage point of each site was assigned the same position number. To recognize a polyadenyla tion site in a nucleotide sequence, a multiplicative measure was obtai ned using the elements of the generalized consensus matrix as weight f actors. For any omega-long fragment of a nucleotide sequence, the esti mated value of the functional mu was compared with the threshold value mu. Based on the results obtained, we determined whether ol not the given fragment is a processing site.