Journal: BMC Bioinformatics

Article Title: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

doi: 10.1186/s12859-016-1338-5

Figure Lengend Snippet: Features of the ProClaT pattern recognition model

Article Snippet: As shown in Table , ProClaT was developed in the programming language Matlab ®, which also worked as Integrated Development Environment (IDE), using the Bioinformatics ToolboxTM.

Techniques: Sequencing, Functional Assay

Journal: BMC Bioinformatics

Article Title: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

doi: 10.1186/s12859-016-1338-5

Figure Lengend Snippet: Flowchart representing the algorithm to develop ProClaT. In the first step, the domain conserved protein and the consensus region are generated. In the second step, a search is performed in NCBI NR with the generated region consensus as query. With the list of similar proteins, the features are extracted and the classifier is trained and tested

Article Snippet: As shown in Table , ProClaT was developed in the programming language Matlab ®, which also worked as Integrated Development Environment (IDE), using the Bioinformatics ToolboxTM.

Techniques: Generated

Journal: BMC Bioinformatics

Article Title: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

doi: 10.1186/s12859-016-1338-5

Figure Lengend Snippet: Original annotation of all complete genome NifO-like proteins. Of the 82 proteins classified as NifO-like with ProClaT, most correspond to nitrogenase-associated protein. The proteins annotated as arsenate reductase, hypothetical and others, totaling 21 proteins, might be re-classified as NifO-like, also

Article Snippet: As shown in Table , ProClaT was developed in the programming language Matlab ®, which also worked as Integrated Development Environment (IDE), using the Bioinformatics ToolboxTM.

Techniques:

Journal: BMC Bioinformatics

Article Title: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

doi: 10.1186/s12859-016-1338-5

Figure Lengend Snippet: Bacterial species containing gene coding for NifO-like and for Nif proteins. ProClaT identified 56 bacterial species containing genes coding for nifO-like. All belong to a genome containing at least three genes coding for an essential Nif protein. Fifty-three species contain at least 4 nif genes, 49 contain at least 5 nif genes and 42 contain all the six essential nif genes

Article Snippet: As shown in Table , ProClaT was developed in the programming language Matlab ®, which also worked as Integrated Development Environment (IDE), using the Bioinformatics ToolboxTM.

Techniques:

Journal: BMC Bioinformatics

Article Title: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

doi: 10.1186/s12859-016-1338-5

Figure Lengend Snippet: Sensitivity and specificity of protein prediction methods

Article Snippet: As shown in Table , ProClaT was developed in the programming language Matlab ®, which also worked as Integrated Development Environment (IDE), using the Bioinformatics ToolboxTM.

Techniques:

Journal: BMC Bioinformatics

Article Title: ProClaT, a new bioinformatics tool for in silico protein reclassification: case study of DraB, a protein coded from the draTGB operon in Azospirillum brasilense

doi: 10.1186/s12859-016-1338-5

Figure Lengend Snippet: NifHDKENB proteins identification by ProClaT

Article Snippet: As shown in Table , ProClaT was developed in the programming language Matlab ®, which also worked as Integrated Development Environment (IDE), using the Bioinformatics ToolboxTM.

Techniques: