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Volume 7 Supplement 1

First International Conference on Phylogenomics

Proceedings

Edited by Hervé Philippe, Mathieu Blanchette

First International Conference on Phylogenomics. Go to conference site.

Sainte-Adèle, Québec, Canada15-19 March, 2006

  1. The First Phylogenomics Conference was held in Ste-Adèle (Québec, Canada) in March 2006. Selected papers appear in this special issue of BMC Evolutionary Biology. Here, we give an introduction to the field and pr...

    Authors: Hervé Philippe and Mathieu Blanchette

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S1

    Content type: Introduction

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  2. Phylogenetic analyses based on datasets rich in both genes and species (phylogenomics) are becoming a standard approach to resolve evolutionary questions. However, several difficulties are associated with the ...

    Authors: Béatrice Roure, Naiara Rodriguez-Ezpeleta and Hervé Philippe

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S2

    Content type: Software

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  4. Thanks to the large amount of signal contained in genome-wide sequence alignments, phylogenomic analyses are converging towards highly supported trees. However, high statistical support does not imply that the...

    Authors: Nicolas Lartillot, Henner Brinkmann and Hervé Philippe

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S4

    Content type: Research

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  5. Models of codon evolution have proven useful for investigating the strength and direction of natural selection. In some cases, a priori biological knowledge has been used successfully to model heterogeneous evolu...

    Authors: Le Bao, Hong Gu, Katherine A Dunn and Joseph P Bielawski

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S5

    Content type: Methodology

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  6. Synonymous codon usage varies widely between genomes, and also between genes within genomes. Although there is now a large body of data on variations in codon usage, it is still not clear if the observed patte...

    Authors: Huai-Chun Wang and Donal A Hickey

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S6

    Content type: Research

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  7. A comprehensive evolutionary analysis of bacterial genomes implies to identify the hallmark of vertical and non-vertical signals and to discriminate them from the presence of mere phylogenetic noise. In this r...

    Authors: Iñaki Comas, Andrés Moya and Fernando González-Candelas

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S7

    Content type: Research

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  8. Bacterial genomes develop new mechanisms to tide them over the imposing conditions they encounter during the course of their evolution. Acquisition of new genes by lateral gene transfer may be one of the domin...

    Authors: Pradeep Reddy Marri, Weilong Hao and G Brian Golding

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S8

    Content type: Research

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  9. Comparative genomics approaches, where orthologous DNA regions are compared and inter-species conserved regions are identified, have proven extremely powerful for identifying non-coding regulatory regions loca...

    Authors: Hui Chen and Mathieu Blanchette

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S9

    Content type: Research

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  10. The rate of evolution varies spatially along genomes and temporally in time. The presence of evolutionary rate variation is an informative signal that often marks functional regions of genomes and historical s...

    Authors: Karin S Dorman

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S10

    Content type: Research

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  11. The diversity of visual systems in fish has long been of interest for evolutionary biologists and neurophysiologists, and has recently begun to attract the attention of molecular evolutionary geneticists. Seve...

    Authors: Cameron J Weadick and Belinda SW Chang

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S11

    Content type: Research

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  12. Function prediction by transfer of annotation from the top database hit in a homology search has been shown to be prone to systematic error. Phylogenomic analysis reduces these errors by inferring protein func...

    Authors: Nandini Krishnamurthy, Duncan Brown and Kimmen Sjölander

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S12

    Content type: Research

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  13. Within eukaryotes there is a complex cascade of RNA-based macromolecules that process other RNA molecules, especially mRNA, tRNA and rRNA. An example is RNase MRP processing ribosomal RNA (rRNA) in ribosome bi...

    Authors: Michael D Woodhams, Peter F Stadler, David Penny and Lesley J Collins

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S13

    Content type: Research

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  14. Widespread transcription activities in the human genome were recently observed in high-resolution tiling array experiments, which revealed many novel transcripts that are outside of the boundaries of known pro...

    Authors: Zhaolei Zhang, Andy Wing Chun Pang and Mark Gerstein

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S14

    Content type: Research

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  15. Transcription factors regulate gene expression by interacting with their specific DNA binding sites. Some transcription factors, particularly those involved in transcription initiation, always bind close to tr...

    Authors: Brandon Smith, Hung Fang, Youlian Pan, P Roy Walker, A Fazel Famili and Marianna Sikorska

    Citation: BMC Evolutionary Biology 2007 7(Suppl 1):S15

    Content type: Research

    Published on:

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