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» Genome Alignments Using MPI-LAGAN
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BMCBI
2010
103views more  BMCBI 2010»
13 years 7 months ago
MTRAP: Pairwise sequence alignment algorithm by a new measure based on transition probability between two consecutive pairs of r
Background: Sequence alignment is one of the most important techniques to analyze biological systems. It is also true that the alignment is not complete and we have to develop it ...
Toshihide Hara, Keiko Sato, Masanori Ohya
BMCBI
2011
13 years 2 months ago
Multithreaded comparative RNA secondary structure prediction using stochastic context-free grammars
Background: The prediction of the structure of large RNAs remains a particular challenge in bioinformatics, due to the computational complexity and low levels of accuracy of state...
Zsuzsanna Sukosd, Bjarne Knudsen, Morten Vaerum, J...
BMCBI
2011
12 years 11 months ago
A user-friendly web portal for T-Coffee on supercomputers
Background: Parallel T-Coffee (PTC) was the first parallel implementation of the T-Coffee multiple sequence alignment tool. It is based on MPI and RMA mechanisms. Its purpose is t...
Josep Rius Torrento, Fernando Cores, Francesc Sols...
BMCBI
2006
100views more  BMCBI 2006»
13 years 7 months ago
DNPTrapper: an assembly editing tool for finishing and analysis of complex repeat regions
Background: Many genome projects are left unfinished due to complex, repeated regions. Finishing is the most time consuming step in sequencing and current finishing tools are not ...
Erik Arner, Martti T. Tammi, Anh-Nhi Tran, Ellen K...
NAR
2011
216views Computer Vision» more  NAR 2011»
12 years 10 months ago
dbDNV: a resource of duplicated gene nucleotide variants in human genome
Gene duplications are scattered widely throughout the human genome. A single-base difference located in nearly identical duplicated segments may be misjudged as a single nucleotid...
Meng-Ru Ho, Kuo-Wang Tsai, Chun-houh Chen, Wen-cha...