DocumentCode
640167
Title
Optimal DNA shotgun sequencing: Noisy reads are as good as noiseless reads
Author
Motahari, Amin ; Ramchandran, Kannan ; Tse, David ; Nan Ma
Author_Institution
Dept. of Electr. Eng. & Comput. Sci., Univ. of California, Berkeley, Berkeley, CA, USA
fYear
2013
fDate
7-12 July 2013
Firstpage
1640
Lastpage
1644
Abstract
We establish the fundamental limits of DNA shotgun sequencing under noisy reads. We show a surprising result: for the i.i.d. DNA model, noisy reads are as good as noiseless reads, provided that the noise level is below a certain threshold which can be surprisingly high. As an example, for a uniformly distributed DNA sequence and a symmetric substitution noisy read channel, the threshold is as high as 19%.
Keywords
DNA; genomics; DNA model; noiseless reads; noisy reads; optimal DNA shotgun sequencing; Assembly; DNA; Greedy algorithms; Noise; Noise level; Noise measurement; Sequential analysis;
fLanguage
English
Publisher
ieee
Conference_Titel
Information Theory Proceedings (ISIT), 2013 IEEE International Symposium on
Conference_Location
Istanbul
ISSN
2157-8095
Type
conf
DOI
10.1109/ISIT.2013.6620505
Filename
6620505
Link To Document