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BMCBI
2010
138views more  BMCBI 2010»
15 years 6 months ago
Sigma-2: Multiple sequence alignment of non-coding DNA via an evolutionary model
Background: While most multiple sequence alignment programs expect that all or most of their input is known to be homologous, and penalise insertions and deletions, this is not a ...
Gayathri Jayaraman, Rahul Siddharthan
BMCBI
2008
124views more  BMCBI 2008»
15 years 6 months ago
Inferring modules of functionally interacting proteins using the Bond Energy Algorithm
Background: Non-homology based methods such as phylogenetic profiles are effective for predicting functional relationships between proteins with no considerable sequence or struct...
Ryosuke Watanabe, Enrique Morett, Edgar E. Vallejo
BMCBI
2008
103views more  BMCBI 2008»
15 years 6 months ago
TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model
Background: Protein structure analysis and comparison are major challenges in structural bioinformatics. Despite the existence of many tools and algorithms, very few of them have ...
Mallika Veeramalai, Yuzhen Ye, Adam Godzik
CORR
2010
Springer
106views Education» more  CORR 2010»
15 years 6 months ago
The WebContent XML Store
In this article, we describe the XML storage system used in the WebContent project. We begin by advocating the use of an XML database in order to store WebContent documents, and w...
Benjamin Nguyen, Spyros Zoupanos
BMCBI
2006
103views more  BMCBI 2006»
15 years 6 months ago
Correction of scaling mismatches in oligonucleotide microarray data
Background: Gene expression microarray data is notoriously subject to high signal variability. Moreover, unavoidable variation in the concentration of transcripts applied to micro...
Martino Barenco, Jaroslav Stark, Daniel Brewer, Da...