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- person_outline Arshan Nasir
Publications for HGTree
Horizontal gene transfer of Chlamydia: Novel insights from tree reconciliation
[…] n this study, we analyzed sets of homologous genes from 64 chlamydial strains from 8 different species and their homologs in 2,407 other prokaryotes using the pipeline employed in our previous study, HGTree database  to initially identify all putative HGT events that occurred within Chlamydiae and between Chlamydiae and non-chlamydial prokaryotes. HGTree is a comprehensive resource providing all […]
Comparative genomics and phylogenomic analyses of lysine riboswitch distributions in bacteria
[…] cted using the same method described earlier and compared with the species tree. To further validate the observation of HGT event detected by explicit phylogenetic methods, we used the information of HGTree database  and also used the NCBI smart blast with a parallel BLASTp search to find the closest matches to high-quality sequences. […]
Toward a Metagenomic Understanding on the Bacterial Composition and Resistome in Hong Kong Banknotes
[…] threshold of identity score was set to > 95% for further analysis. Using blastp (−e 1e-5), the protein sequences from all functional ARGs were mapped to the gene families that were acquired from the HGTree database (Jeong et al., ). The gene family of an ARG was defined with the gene family with the highest proportion of valid hits (1e-5 and coverage > 50% in query or subject). RANGER-DTL (Bansal […]
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