Genome Biology

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Predicting genes for orphan metabolic activities using phylogenetic profiles

Lifeng Chen and Dennis Vitkup*

Genome Biology 2006, 7:R17 doi:10.1186/gb-2006-7-2-r17

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Research article   Open Access

Phylogenetically informed logic relationships improve detection of biological network organization

Jike Cui, Todd F DeLuca, Jae-Yoon Jung, Dennis P Wall BMC Bioinformatics 2011, 12:476 (15 December 2011)

Research article   Open Access

The human metabolic reconstruction Recon 1 directs hypotheses of novel human metabolic functions

Ottar Rolfsson, Bernhard Ø Palsson, Ines Thiele BMC Systems Biology 2011, 5:155 (1 October 2011)

Research article   Open Access

Prioritizing orphan proteins for further study using phylogenomics and gene expression profiles in Streptomyces coelicolor

Mohammad Alam, Eriko Takano, Rainer Breitling BMC Research Notes 2011, 4:325 (7 September 2011)

Methodology article   Open Access

Inferring modules of functionally interacting proteins using the Bond Energy Algorithm

Ryosuke LA Watanabe, Enrique Morett, Edgar E Vallejo BMC Bioinformatics 2008, 9:285 (17 June 2008)

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Rapid acid treatment of Escherichia coli: transcriptomic response and recovery

Geetha Kannan, Jessica C Wilks, Devon M Fitzgerald, Brian D Jones, Sandra S BonDurant, Joan L Slonczewski BMC Microbiology 2008, 8:37 (26 February 2008)

Methodology article   Open Access

Optimization based automated curation of metabolic reconstructions

Vinay Satish Kumar, Madhukar S Dasika, Costas D Maranas BMC Bioinformatics 2007, 8:212 (20 June 2007)