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  1. Content type: Research

    Fitness landscapes, the dependences of fitness on the genotype, are of critical importance for the evolution of living beings. Unfortunately, fitness landscapes that are relevant to the evolution of complex bi...

    Authors: Alex A Neyfakh, Natalya N Baranova and Lev J Mizrokhi

    Citation: Biology Direct 2006 1:23

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  2. Content type: Research

    Despite great advances in clarifying the family tree of life, it is still not agreed where its root is or what properties the most ancient cells possessed – the most difficult problems in phylogeny. Protein pa...

    Authors: Thomas Cavalier-Smith

    Citation: Biology Direct 2006 1:19

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  3. Content type: Research

    Gene expression microarray technology continues to evolve and its use has expanded into all areas of biology. However, the high dimensionality of the data makes analysis a difficult challenge. Evaluating measu...

    Authors: Jaroslav P Novak, Merrill C Miller III and Douglas A Bell

    Citation: Biology Direct 2006 1:18

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  4. Content type: Review

    Applications of Genome Polymorphism Scans range from the relatively simple such as gender determination and confirmation of biological relationships, to the relatively complex such as determination of autozygo...

    Authors: James L Weber

    Citation: Biology Direct 2006 1:16

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  5. Content type: Research

    HIV can evolve drug resistance rapidly in response to new drug treatments, often through a combination of multiple mutations [13]. It would be useful to develop automated analyses of HIV sequence polymorphism th...

    Authors: Lamei Chen and Christopher Lee

    Citation: Biology Direct 2006 1:14

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  6. Content type: Research

    We present psi-square, a program for searching the space of gene vectors. The program starts with a gene vector, i.e., the set of measurements associated with a gene, and finds similar vectors, derives a proba...

    Authors: Galina Glazko, Michael Coleman and Arcady Mushegian

    Citation: Biology Direct 2006 1:13

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  7. Content type: Research

    Predicting and proper ranking of canonical splice sites (SSs) is a challenging problem in bioinformatics and machine learning communities. Any progress in SSs recognition will lead to better understanding of s...

    Authors: Alexander Churbanov, Igor B Rogozin, Jitender S Deogun and Hesham Ali

    Citation: Biology Direct 2006 1:10

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  8. Content type: Research

    Microscopic examination of living cells often reveals that cells from some cell strains appear to be in a permanent state of disarray without obvious reason. In all probability such a disorderly state affects ...

    Authors: Johannes WIM Simons

    Citation: Biology Direct 2006 1:9

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  9. Content type: Research

    Peroxisomes are ubiquitous eukaryotic organelles involved in various oxidative reactions. Their enzymatic content varies between species, but the presence of common protein import and organelle biogenesis syst...

    Authors: Toni Gabaldón, Berend Snel, Frank van Zimmeren, Wieger Hemrika, Henk Tabak and Martijn A Huynen

    Citation: Biology Direct 2006 1:8

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  10. Content type: Research

    All archaeal and many bacterial genomes contain Clustered Regularly Interspaced Short Palindrome Repeats (CRISPR) and variable arrays of the CRISPR-associated (cas) genes that have been previously implicated in a...

    Authors: Kira S Makarova, Nick V Grishin, Svetlana A Shabalina, Yuri I Wolf and Eugene V Koonin

    Citation: Biology Direct 2006 1:7

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  11. Content type: Research

    Oncolytic viruses that specifically target tumor cells are promising anti-cancer therapeutic agents. The interaction between an oncolytic virus and tumor cells is amenable to mathematical modeling using adapta...

    Authors: Artem S Novozhilov, Faina S Berezovskaya, Eugene V Koonin and Georgy P Karev

    Citation: Biology Direct 2006 1:6

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  12. Content type: Research

    For the purposes of phylogenetic inference from molecular data sets many different methods are currently offered as alternatives for researchers in phylogenetic systematics. The vast majority of these methods ...

    Authors: Srdan V Stankov

    Citation: Biology Direct 2006 1:5

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  13. Content type: Research

    The mutation spectra of the TP53 gene and other tumor suppressors contain multiple hotspots, i.e., sites of non-random, frequent mutation in tumors and/or the germline. The origin of the hotspots remains unclear,...

    Authors: Galina V Glazko, Vladimir N Babenko, Eugene V Koonin and Igor B Rogozin

    Citation: Biology Direct 2006 1:4

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