Sentence examples for between two proteins based from inspiring English sources

SDA computes association rates by simulating the diffusion association between two proteins based on Brownian dynamics (see material and methods and [26], [31], [32].

The acceptor photobleaching method is one of the accurate methods available to determine the interaction between two proteins based on the increased intensity of donor fluorescence at the time of acceptor bleaching.

SCAN first defines the structural similarity between two proteins based on their common neighbors.

Thus, we may be inferred functional association by significant domain cooccurrence between two proteins based on InterPro database (10).

Zhang et al. (2008) proposed the dice coefficient (DC) to measure interaction affinity between two proteins based on similarity of their co-purification patterns.

In this study, we additionally used that method to define a functional similarity interaction between two protein complexes based on protein interaction network.

Therefore, to construct functional similarity protein complex networks where each node is a protein complex, we defined a functional similarity interaction between two protein complexes based on: i) shared protein elements; ii) shared annotating GO terms; and iii) protein interactions.

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).

Therefore, as we did in our previous study [ 21], we defined a functional similarity interaction between two protein complexes based on their shared protein elements as follows: Two protein complexes are functionally interacted with each other if they share at least one protein element.

In our method, the semantic similarity between two proteins is calculated based on the annotation size of the GO term (which is defined as the number of annotated proteins on the GO term) on which both proteins are annotated.

Functional similarity between two proteins was calculated based on their associated Gene Ontology (GO) annotation [ 45] using the method of Wang et al. [ 46] as implemented in the GOSemSim package [ 47] http://www.bioconductor.org/packages/2.4/bioc/html/GOSemSim.html.html