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OGtree specifications

Information


Unique identifier OMICS_15386
Name OGtree
Interface Web user interface
Restrictions to use None
Input format FASTA-like
Output data An overlapping-gene distance matrix.
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Chin Lung Lu

Publication for OGtree

OGtree citations

 (2)
library_books

A novel bioinformatics pipeline to discover genes related to arbuscular mycorrhizal symbiosis based on their evolutionary conservation pattern among higher plants

2014
BMC Plant Biol
PMCID: 4274732
PMID: 25465219
DOI: 10.1186/s12870-014-0333-0

[…] ogy of the tree is considered in a heuristic process referred to as hierarchical orthology inference. The resulting clusters of homologues protein sequences were saved in a file called eudicotyledons.OGTree.txt (Additional file : File S3, script P0_HieraProcedure). Additional filtering steps were applied to this file using the Newick utilities [] keeping only clusters that contained sequences from […]

library_books

Reconstructing genome trees of prokaryotes using overlapping genes

2010
BMC Bioinformatics
PMCID: 2845580
PMID: 20181237
DOI: 10.1186/1471-2105-11-102

[…] roduced by traditional phylogenetic approaches based on ribosomal RNAs and/or concatenation of multiple protein sequences [].To address this problem, we have recently implemented a new server, called OGtree [], which allows evolutionary biologists to reconstruct more reliable genome trees of some prokaryotes by using not only their OG content but also their OG order. It has been widely accepted th […]


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OGtree institution(s)
Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan; Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, Taiwan
OGtree funding source(s)
This work was supported in part by National Science Council of Republic of China under grant NSC96-2221-E- 009-126 and in part by the ATU plan of MOE.

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