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» Case Study: Visualization of annotated DNA sequences
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BMCBI
2010
141views more  BMCBI 2010»
13 years 8 months ago
Computing and visually analyzing mutual information in molecular co-evolution
Background: Selective pressure in molecular evolution leads to uneven distributions of amino acids and nucleotides. In fact one observes correlations among such constituents due t...
Sebastian Bremm, Tobias Schreck, Patrick Boba, Ste...
CANDC
2008
ACM
13 years 8 months ago
'Genome order index' should not be used for defining compositional constraints in nucleotide sequences
Background: The Z-curve is a three dimensional representation of DNA sequences proposed over a decade ago and has been extensively applied to sequence segmentation, horizontal gen...
Eran Elhaik, Dan Graur, Kresimir Josic
BMCBI
2008
101views more  BMCBI 2008»
13 years 8 months ago
Scipio: Using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related
Background: For many types of analyses, data about gene structure and locations of non-coding regions of genes are required. Although a vast amount of genomic sequence data is ava...
Oliver Keller, Florian Odronitz, Mario Stanke, Mar...
BMCBI
2007
163views more  BMCBI 2007»
13 years 8 months ago
Strainer: software for analysis of population variation in community genomic datasets
Background: Metagenomic analyses of microbial communities that are comprehensive enough to provide multiple samples of most loci in the genomes of the dominant organism types will...
John M. Eppley, Gene W. Tyson, Wayne M. Getz, Jill...
BMCBI
2011
13 years 3 months ago
iPhy: an integrated phylogenetic workbench for supermatrix analyses
Background: The increasing availability of molecular sequence data means that the accuracy of future phylogenetic studies is likely to by limited by systematic bias and taxon choi...
Martin O. Jones, Georgios D. Koutsovoulos, Mark L....