Tag: Analysis Server

MG-RAST 3.5.11 – Metagenomics Analysis Server

MG-RAST 3.5.11

:: DESCRIPTION

MG-RAST (the Metagenomics RAST) server is an automated analysis platform for metagenomes providing quantitative insights into microbial populations based on sequence data.

::DEVELOPER

Folker Meyer, Argonne National Laboratory,

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • MySQL
  • PostGres
  • Perl
  • R package
  • Apache

:: DOWNLOAD

  MG-RAST

:: MORE INFORMATION

Citation

The Metagenomics RAST server – A public resource for the automatic phylogenetic and functional analysis of metagenomes
F. Meyer, D. Paarmann, M. D’Souza, R. Olson , E. M. Glass, M. Kubal, T. Paczian , A. Rodriguez , R. Stevens, A. Wilke, J. Wilkening, R. A. Edwards
BMC Bioinformatics 2008, 9:386 ,

psRNATarget – Plant small RNA Target Analysis Server

psRNATarget

:: DESCRIPTION

psRNATarget is a plant small RNA target analysis server, which features two important analysis functions: 1) reverse complementary matching between miRNA and target transcript using a proven scoring schema, and 2) target site accessibility evaluation by calculating unpaired energy (UPE) required to “open” secondary structure around miRNA’s target site on mRNA.

::DEVELOPER

The Zhao Bioinformaitcs Lab at the Samuel Roberts Noble Foundation

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W155-9. doi: 10.1093/nar/gkr319. Epub 2011 May 27.
psRNATarget: a plant small RNA target analysis server.
Dai X1, Zhao PX.

pssRNAMiner – A Plant short small RNA Regulatory Cascade Analysis Server

pssRNAMiner

:: DESCRIPTION

pssRNAMiner is a novel web server  which is developed to identify both the clusters of phased small RNAs as well as the potential phase-initiator.

::DEVELOPER

The Zhao Bioinformaitcs Lab at the Samuel Roberts Noble Foundation

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W114-8. doi: 10.1093/nar/gkn297. Epub 2008 May 12.
pssRNAMiner: a plant short small RNA regulatory cascade analysis server.
Dai X1, Zhao PX.

GPLEXUS – The High-performance Gene Association Network Analysis Server

GPLEXUS

:: DESCRIPTION

GPLEXUS integrates a series of novel algorithms in a parallel-computing environment to construct and analyze genome-wide GANs.

::DEVELOPER

The Zhao Bioinformaitcs Lab at the Samuel Roberts Noble Foundation 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2014 Mar;42(5):e32. doi: 10.1093/nar/gkt983. Epub 2013 Oct 30.
GPLEXUS: enabling genome-scale gene association network reconstruction and analysis for very large-scale expression data.
Li J1, Wei H, Liu T, Zhao PX.