10.3389/fmicb.2018.02183.s003 Vineet Bhatt Vineet Bhatt Anwesha Mohapatra Anwesha Mohapatra Swadha Anand Swadha Anand Bhusan K. Kuntal Bhusan K. Kuntal Sharmila S. Mande Sharmila S. Mande Image_2_FLIM-MAP: Gene Context Based Identification of Functional Modules in Bacterial Metabolic Pathways.PDF Frontiers 2018 gene context functional potential bacteria metabolic pathway annotation genome 2018-09-18 04:08:36 Figure https://frontiersin.figshare.com/articles/figure/Image_2_FLIM-MAP_Gene_Context_Based_Identification_of_Functional_Modules_in_Bacterial_Metabolic_Pathways_PDF/7097249 <p>Prediction of functional potential of bacteria can only be ascertained by the accurate annotation of its metabolic pathways. Homology based methods decipher metabolic gene content but ignore the fact that homologs of same protein can function in different pathways. Therefore, mere presence of all constituent genes in an organism is not sufficient to indicate a pathway. Contextual occurrence of genes belonging to a pathway on the bacterial genome can hence be exploited for an accurate estimation of functional potential of a bacterium. In this communication, we present a novel annotation resource to accurately identify pathway presence by using gene context. Our tool FLIM-MAP (Functionally Important Modules in bacterial Metabolic Pathways) predicts biologically relevant functional units called ‘GCMs’ (Gene Context based Modules) from a given metabolic reaction network. We benchmark the accuracy of our tool on amino acids and carbohydrate metabolism pathways.</p>