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. 2014 Dec 5;15(1):946. doi: 10.1186/1471-2164-15-946

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© Allen et al.; licensee BioMed Central. 2014

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Evaluating methods for accurately identifying CydX homologues in 1121 species of bacteria. (A) Venn diagram of the number of CydX homologues identified by an HMM-based method (“HMM”), a tblastn screen of the NCBI microbial database using the CydX protein sequence as the query and an expect value of 1000 (“tblastn”), or by manual curation (“Missed”). (B) Receiver operating characteristic (ROC) plot of a tblastn screen of the microbial database using the CydX protein sequence as the query with different E-value cutoffs. (C) Graph of the number of CydX homologues identified in a tblastn screen of the microbial database using the CydX protein sequence as the query with different expect values. All tblastn searches were conducted using the NCBI BLAST Microbial Genomes site [45].