mySyntenyPortal / SYNTENY PORTAL- Websites for Synteny Block Analysis

mySyntenyPortal / SYNTENY PORTAL

:: DESCRIPTION

mySyntenyPortal is a stand-alone application for constructing websites for visualizing and browsing synteny blocks

SYNTENY PORTAL is a web application portal for visualizing, browsing, searching and building synteny blocks.

::DEVELOPER

Bioinformatics Laboratory, Konkuk University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
Apache
Perl

:: DOWNLOAD

mySyntenyPortal

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2018 Jun 5;19(1):216. doi: 10.1186/s12859-018-2219-x.
mySyntenyPortal: an application package to construct websites for synteny block analysis.
Lee J, Lee D, Sim M, Kwon D, Kim J, Ko Y, Kim J.

Nucleic Acids Res. 2016 Jul 8;44(W1):W35-40. doi: 10.1093/nar/gkw310. Epub 2016 May 6.
Synteny Portal: a web-based application portal for synteny block analysis.
Lee J, Hong WY, Cho M, Sim M, Lee D, Ko Y, Kim J

OrthoCluster – Synteny Block Detection

OrthoCluster

:: DESCRIPTION

OrthoCluster is a fast and easy-to-use program for the identification of synteny blocks among multiple genomes.

::DEVELOPER

Jack Chen lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / MacOsX / Windows

:: DOWNLOAD

OrthoCluster

:: MORE INFORMATION

Citation

Zeng et al.,
“OrthoCluster: A New Tool for Mining Syntenic Blocks and Applications in Comparative Genomics“.
In Proceedings of the 11th International Conferences on Extending Database Technology (EDBT’08), Nantes, France, March 25-30, 2008.

Using OrthoCluster for the detection of synteny blocks among multiple genomes.
Vergara IA, Chen N.
Curr Protoc Bioinformatics. 2009 Sep;Chapter 6:Unit 6.10 6.10.1-18. doi: 10.1002/0471250953.bi0610s27.

Sibelia 3.0.7 – Synteny Block ExpLoration tool

Sibelia 3.0.7

:: DESCRIPTION

Sibelia is a comparative genomic tool。 It assists biologists in analysing the genomic variations that correlate with pathogens, or the genomic changes that help microorganisms adapt in different environments.

::DEVELOPER

Algorithmic Biology Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / MacOsX / Windows

:: DOWNLOAD

Sibelia

:: MORE INFORMATION

Citation

F1000Res. 2013 Nov 25;2:258. doi: 10.12688/f1000research.2-258.v1. eCollection 2013.
C-Sibelia: an easy-to-use and highly accurate tool for bacterial genome comparison.
Minkin I, Pham H, Starostina E, Vyahhi N, Pham S

Ilya Minkin, Anand Patel, Mikhail Kolmogorov, Nikolay Vyahhi, Son Pham.
Sibelia: A fast synteny blocks generation tool for many closely related microbial genomes
(submitted)