Nonoverlapping Clone Pooling for High-Throughput Sequencing
Data
2013-09-01
Tipo
Artigo
Título da Revista
ISSN da Revista
Título de Volume
Resumo
Simultaneously sequencing multiple clones using second-generation sequencers can speed up many essential clone-based sequencing methods. However, in applications such as fosmid clone sequencing and full-length cDNA sequencing, it is important to create pools of clones that do not overlap on the genome for the identification of structural variations and alternatively spliced transcripts, respectively. We define the nonoverlapping clone pooling problem and provide practical solutions based on optimal graph coloring and bin-packing algorithms with constant absolute worst-case ratios, and further extend them to cope with repetitive mappings. Using theoretical analysis and experiments, we also show that the proposed methods are applicable.
Descrição
Citação
Ieee-acm Transactions On Computational Biology and Bioinformatics. Los Alamitos: Ieee Computer Soc, v. 10, n. 5, p. 1091-1097, 2013.