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  1. The Flaviviridae virus family includes major human and animal pathogens. The RNA dependent RNA polymerase (RdRp) plays a central role in the replication process, and thus is a validated target for antiviral drugs...

    Authors: François Ferron, Cécile Bussetta, Hélène Dutartre and Bruno Canard
    Citation: BMC Bioinformatics 2005 6:255
    Content type: Research article Published on:

  2. cDNA microarray technology has emerged as a major player in the parallel detection of biomolecules, but still suffers from fundamental technical problems. Identifying and removing unreliable data is crucial to...

    Authors: Max Bylesjö, Daniel Eriksson, Andreas Sjödin, Michael Sjöström, Stefan Jansson, Henrik Antti and Johan Trygg
    Citation: BMC Bioinformatics 2005 6:250
    Content type: Methodology article Published on:

  3. The signal peptide plays an important role in protein targeting and protein translocation in both prokaryotic and eukaryotic cells. This transient, short peptide sequence functions like a postal address on an ...

    Authors: Khar Heng Choo, Tin Wee Tan and Shoba Ranganathan
    Citation: BMC Bioinformatics 2005 6:249
    Content type: Database Published on:

  6. Single Nucleotide Polymorphism (SNP) genotyping is a major activity in biomedical research. The Taqman technology is one of the most commonly used approaches. It produces large amounts of data that are difficu...

    Authors: Stéphanie Monnier, David G Cox, Tim Albion and Federico Canzian
    Citation: BMC Bioinformatics 2005 6:246
    Content type: Software Published on:

  8. Currently available methods to predict splice sites are mainly based on the independent and progressive alignment of transcript data (mostly ESTs) to the genomic sequence. Apart from often being computationall...

    Authors: Paola Bonizzoni, Raffaella Rizzi and Graziano Pesole
    Citation: BMC Bioinformatics 2005 6:244
    Content type: Software Published on:

  10. The sequencing of the human genome has enabled us to access a comprehensive list of genes (both experimental and predicted) for further analysis. While a majority of the approximately 30000 known and predicted...

    Authors: Qicheng Ma, Gung-Wei Chirn, Richard Cai, Joseph D Szustakowski and NR Nirmala
    Citation: BMC Bioinformatics 2005 6:242
    Content type: Methodology article Published on:

  11. In the last few decades there has been a great deal of discussion concerning whether or not noncoding RNA sequences (ncRNAs) fold in a more well-defined manner than random sequences. In this paper, we investig...

    Authors: Eva Freyhult, Paul P Gardner and Vincent Moulton
    Citation: BMC Bioinformatics 2005 6:241
    Content type: Research article Published on:

  12. The recent explosion in the availability of complete genome sequences has led to the cataloging of tens of thousands of new proteins and putative proteins. Many of these proteins can be structurally or functio...

    Authors: Thomas J Magliery and Lynne Regan
    Citation: BMC Bioinformatics 2005 6:240
    Content type: Research article Published on:

  13. A recent publication described a supervised classification method for microarray data: Between Group Analysis (BGA). This method which is based on performing multivariate ordination of groups proved to be very...

    Authors: Florent Baty, Michel P Bihl, Guy Perrière, Aedín C Culhane and Martin H Brutsche
    Citation: BMC Bioinformatics 2005 6:239
    Content type: Methodology article Published on:

  14. Clone-based microarrays, on which each spot represents a random genomic fragment, are a good alternative to open reading frame-based microarrays, especially for microorganisms for which the complete genome seq...

    Authors: Bart Pieterse, Elisabeth J Quirijns, Frank HJ Schuren and Mariët J van der Werf
    Citation: BMC Bioinformatics 2005 6:238
    Content type: Methodology article Published on:

  15. Collections of transcription factor binding profiles (Transfac, Jaspar) are essential to identify regulatory elements in DNA sequences. Subsets of highly similar profiles complicate large scale analysis of tra...

    Authors: Szymon M Kielbasa, Didier Gonze and Hanspeter Herzel
    Citation: BMC Bioinformatics 2005 6:237
    Content type: Software Published on:

  16. General protein evolution models help determine the baseline expectations for the evolution of sequences, and they have been extensively useful in sequence analysis and for the computer simulation of artificia...

    Authors: Andy Pang, Andrew D Smith, Paulo AS Nuin and Elisabeth RM Tillier
    Citation: BMC Bioinformatics 2005 6:236
    Content type: Software Published on:

  17. Several data formats have been developed for large scale biological experiments, using a variety of methodologies. Most data formats contain a mechanism for allowing extensions to encode unanticipated data types....

    Authors: Andrew R Jones and Norman W Paton
    Citation: BMC Bioinformatics 2005 6:235
    Content type: Methodology article Published on:

  18. A common feature of microarray experiments is the occurence of missing gene expression data. These missing values occur for a variety of reasons, in particular, because of the filtering of poor quality spots a...

    Authors: Brian DM Tom, Walter R Gilks, Elizabeth T Brooke-Powell and James W Ajioka
    Citation: BMC Bioinformatics 2005 6:234
    Content type: Methodology article Published on:

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