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HGTree specifications

Information


Unique identifier OMICS_10796
Name HGTree
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Allowed
Maintained Yes

Maintainer


  • person_outline Arshan Nasir

Additional information


Tutorial: http://hgtree.snu.ac.kr/tutorial.php?access=t

Publications for HGTree

HGTree citations

 (3)
library_books

Horizontal gene transfer of Chlamydia: Novel insights from tree reconciliation

2018
PLoS One
PMCID: 5886423
PMID: 29621277
DOI: 10.1371/journal.pone.0195139

[…] 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 […]

library_books

Comparative genomics and phylogenomic analyses of lysine riboswitch distributions in bacteria

2017
PLoS One
PMCID: 5584792
PMID: 28873470
DOI: 10.1371/journal.pone.0184314

[…] 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. […]

library_books

Toward a Metagenomic Understanding on the Bacterial Composition and Resistome in Hong Kong Banknotes

2017
Front Microbiol
PMCID: 5389987
PMID: 28450856
DOI: 10.3389/fmicb.2017.00632

[…] 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 […]

Citations

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HGTree institution(s)
Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA; Department of Biosciences, COMSATS Institute of Information Technology, Islamabad, Pakistan; Evolutionary Bioinformatics Laboratory, Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA

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