Mathematical model for empirically optimizing large scale production of soluble protein domains.

ABSTRACT:

Background

Efficient dissection of large proteins into their structural domains is critical for high throughput proteome analysis. So far, no study has focused on mathematically modeling a protein dissection protocol in terms of a production system. Here, we report a mathematical model for empirically optimizing the cost of large-scale domain production in proteomics research.

Results

The model computes the expected number of successfully producing soluble domains, using a conditional probability between domain and boundary identification. Typical values for the model's parameters were estimated using the experimental results for identifying soluble domains from the 2,032 Kazusa HUGE protein sequences. Among the 215 fragments corresponding to the 24 domains that were express

SUBMITTER: Chikayama E 

PROVIDER: S-EPMC2843616 | biostudies-literature | 2010 Mar

REPOSITORIES: biostudies-literature