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ALMOB
2008
82views more  ALMOB 2008»
13 years 4 months ago
Protein sequence and structure alignments within one framework
Background: Protein structure alignments are usually based on very different techniques to sequence alignments. We propose a method which treats sequence, structure and even combi...
Gundolf Schenk, Thomas Margraf, Andrew E. Torda
ALMOB
2008
131views more  ALMOB 2008»
13 years 4 months ago
Fast algorithms for computing sequence distances by exhaustive substring composition
The increasing throughput of sequencing raises growing needs for methods of sequence analysis and comparison on a genomic scale, notably, in connection with phylogenetic tree reco...
Alberto Apostolico, Olgert Denas
ALMOB
2008
124views more  ALMOB 2008»
13 years 4 months ago
A scoring matrix approach to detecting miRNA target sites
Background: Experimental identification of microRNA (miRNA) targets is a difficult and time consuming process. As a consequence several computational prediction methods have been ...
Simon Moxon, Vincent Moulton, Jan T. Kim
ALMOB
2008
81views more  ALMOB 2008»
13 years 4 months ago
Stability of multiple alignments and phylogenetic trees: an analysis of ABC-transporter proteins family
Background: Sequence-based phylogeny reconstruction is a fundamental task in Bioinformatics. Practically all methods for phylogeny reconstruction are based on multiple alignments....
Holger Wagner, Burkhard Morgenstern, Andreas W. M....
ALMOB
2008
85views more  ALMOB 2008»
13 years 4 months ago
Noisy: Identification of problematic columns in multiple sequence alignments
Motivation: Sequence-based methods for phylogenetic reconstruction from (nucleic acid) sequence data are notoriously plagued by two effects: homoplasies and alignment errors. Larg...
Andreas W. M. Dress, Christoph Flamm, Guido Fritzs...