… Patrik D'haeseleer … Patrik D'haeseleer … D'haeseleer, P. How does gene expression
clustering work?. Nat Biotechnol 23, 1499–1501 (2005). …

Sequence motifs are becoming increasingly important in the analysis of gene regulation.
How do we define sequence motifs, and why should we use sequence logos instead of …

… Interestingly, the term 'Gibbs sampling' was borrowed by analogy from statistical mechanics
(via simulated annealing), where it refers to the inverse exponential relationship between …

Sequencing of bacterial and archaeal genomes has revolutionized our understanding of the
many roles played by microorganisms 1 . There are now nearly 1,000 completed bacterial …

The biological effects and expected fate of the vast amount of oil in the Gulf of Mexico from
the Deepwater Horizon blowout are unknown owing to the depth and magnitude of this event. …

… P that all N rule tables are fully specified by n data points, and calculate how the number of
data points n needs to scale with P, the number of genes N, and connectivity K. For P ≈ 1 (ie …

We present new results on a distributable change-detection method inspired by the natural
immune system. A weakness in the original algorithm was the exponential cost of generating …

Large-scale gene expression data sets are revolutionizing the field of functional genomics.
However, few data analysis techniques fully exploit this entirely new class of data. We …

… Genes encoding exopolyphosphatase (ppx) for inorganic polyphosphate degradation
and phytase for phytate degradation were detected with significantly (P<0.01 and P<0.05, …

For over 10 years, ModelSEED has been a primary resource for the construction of draft
genome-scale metabolic models based on annotated microbial or plant genomes. Now being …