Sentence examples for based on shared protein from inspiring English sources

Examples in biology are networks based on protein-protein interaction data, those based on shared protein domains, genetic interaction networks or coexpression networks.

The hypergeometric test was used in a previous study [ 19] to predict protein-protein interactions (PPIs) in yeast based on shared protein neighbors in small world interactions.

Comparing to our previous study [ 21], which used RWR algorithm on a functional similarity protein complex network built based on shared protein elements, in this study, we presented a framework to construct functional similarity protein complex networks based on not only shared protein elements, but also shared annotating GO terms and protein interactions.

Given two protein complexes Ci = { p k | k = 1…m} and Cj = { p l | l = 1…n}, where p k, p l are protein elements of Ci and Cj, m and n are the number of protein elements belonging to Ci and Cj, respectively, we here defined three kinds of functional similarity interactions between Ci and Cj based on shared protein elements, shared annotating GO terms and protein interactions.

Some of these new connections can be detected by methods based on shared protein components but many other relevant ones were only found by our methodology.

The concept of this function-based approach (FBA) quite differs from the physical entity-based approach (PEBA) which identifies pathway cross-talks based on shared components and protein-protein interaction.

In addition, these networks can be constructed based on shared pathways [35], shared miRNA [36], shared protein complex [37], shared disease ontology [38] and disease comorbidity [39].

We here describe CSIDOP, a new method for protein function assignment based on shared interacting domain patterns extracted from cross-species protein-protein interaction data.

Therefore, we additionally constructed a functional similarity interaction between two protein complexes based on shared annotating GO terms, where a list of genes and annotating GO terms were collected from NCBI Entrez Gene FTP site (ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/ gene2go.gz).

We also note that a disease similarity network can be constructed based on shared disease gene [30], shared pathways [35], shared miRNA [36], shared protein complex [37], shared disease ontology [38] and disease comorbidity [39].

To identify the enzyme/s responsible for GAP-43 deacylation, we performed a bioinformatic search based on shared properties of the only two proteins described with APT activity, APT-1 and PPT-1.