Comparison of the scope of reconstructions (Yeast 4.0 being the version number of the current reconstruction).
In a federal lawsuit filed in October, residents asserted that the Federal Highway Administration and the Texas Department of Transportation had expanded the scope of its reconstruction without proper environmental review.
With fighting still under way, it is too early to estimate the scope of the reconstruction needed in Libya, though officials acknowledged that the effort would be immense.
Careful curation does not simply involve increasing the scope of the reconstruction.
In such cases, expanding the reconstruction of established knowledge would not be expected to improve a model's ability to predict single-gene mutant viability, and so such metrics would not reflect the expanded scope of the reconstruction.
In this attempt at reconstruction of metabolic protein complexes, we chose to utilize only those structures supported by strong experimental evidence; however, the scope of this reconstruction could be further expanded through modeling of protein complex structures, as has been attempted by others recently [ 15].
He certainly altered the shape of Reconstruction.
We note that such differences between model prediction and observation may arise from regulatory constraints that are outside the scope of a metabolic reconstruction, or may be informative of opportunities for continued network curation.
The scope of Yeast Consensus Reconstruction was originally determined by the data sets used for its construction: the iMM904 [ 12] and iLL672 [ 10] models, which included information from the KEGG and SGD databases, along with other sources.
In the absence of regulatory constraints (which are beyond the scope of a metabolic reconstruction), these parallel pathways would increase the rate of false positive prediction since a metabolic pathway from substrate to product would exist in the reconstruction, even if a given isoenzyme were individually insufficient to support growth in vivo.
Additional limitations arise from the appropriately limited scope of the metabolic network reconstruction.
