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» Optimal spliced alignments of short sequence reads
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ECCB
2008
IEEE
13 years 6 months ago
Optimal spliced alignments of short sequence reads
ent> <title> <p>Highlights from the Fourth International Society for Computational Biology (ISCB) Student Council Symposium</p> </title> <editor>Lu...
Fabio De Bona, Stephan Ossowski, Korbinian Schneeb...
BMCBI
2005
122views more  BMCBI 2005»
13 years 4 months ago
ASPIC: a novel method to predict the exon-intron structure of a gene that is optimally compatible to a set of transcript sequenc
Background: Currently available methods to predict splice sites are mainly based on the independent and progressive alignment of transcript data (mostly ESTs) to the genomic seque...
Paola Bonizzoni, Raffaella Rizzi, Graziano Pesole
GCB
2006
Springer
140views Biometrics» more  GCB 2006»
13 years 8 months ago
PALMA: Perfect Alignments using Large Margin Algorithms
: Despite many years of research on how to properly align sequences in the presence of sequencing errors, alternative splicing and micro-exons, the correct alignment of mRNA sequen...
Gunnar Rätsch, Bettina Hepp, Uta Schulze, Che...
CSB
2003
IEEE
13 years 10 months ago
A New Approach for Gene Annotation Using Unambiguous Sequence Joining
The problem addressed by this paper is accurate and automatic gene annotation following precise identification/annotation of exon and intron boundaries of biologically verified ...
Alexandre Tchourbanov, Daniel Quest, Hesham H. Ali...
BMCBI
2010
183views more  BMCBI 2010»
13 years 5 months ago
SOPRA: Scaffolding algorithm for paired reads via statistical optimization
Background: High throughput sequencing (HTS) platforms produce gigabases of short read (<100 bp) data per run. While these short reads are adequate for resequencing application...
Adel Dayarian, Todd P. Michael, Anirvan M. Sengupt...