Bio-SeCo – Bioinformatics Search Computing Application

Bio-SeCo

:: DESCRIPTION

Bio-SeCo allows exploring and integrating data from external resources (e.g. NCBI and WU BLAST, Array Express, …).

::DEVELOPER

Bio-SeCo team

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2014;15 Suppl 1:S3. doi: 10.1186/1471-2105-15-S1-S3. Epub 2014 Jan 10.
Explorative search of distributed bio-data to answer complex biomedical questions.
Masseroli M, Picozzi M, Ghisalberti G, Ceri S.

Cyclone 1.0 beta – Java-based Querying and Computing with Pathway/Genome databases

Cyclone 1.0 beta

:: DESCRIPTION

Cyclone aims at facilitating the use of BioCyc, a biological pathway tool. Cyclone provides a comprehensive library of Java classes.

::DEVELOPER

Genoscope – Institut de Génomique – CEA

:: SCREENSHOTS

Cyclone

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • Java

:: DOWNLOAD

 Cyclone

:: MORE INFORMATION

Citation

Bioinformatics. 2007 May 15;23(10):1299-300. Epub 2007 Mar 28.
Cyclone: java-based querying and computing with Pathway/Genome databases.
Le Fèvre F1, Smidtas S, Sch?chter V.

MY-CLOSURE 1.0 – Computing a Phylogenetic Network from a collection of Phylogenetic Trees

MY-CLOSURE 1.0

:: DESCRIPTION

MY-CLOSURE is a Java program for computing a phylogenetic network from a collection of phylogenetic trees.

::DEVELOPER

The UEA Computational Biology Laboratory at the University of East Anglia (UEA)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ Windows/MacOsX
  • Java

:: DOWNLOAD

 MY-CLOSURE

:: MORE INFORMATION

Citation

S. Grunewald, K. T. Huber and Q. Wu,
2 Novel Closure Rules for Constructing Phylogenetic Super-networks,
Bulletin of Mathematical Biology, 70: 1906-1924, 2008

AffyProbeMiner 1.0 – Computing or Retrieving Accurately Redefined Affymetrix probe sets

AffyProbeMiner 1.0

:: DESCRIPTION

AffyProbeMiner is to re-define chip definition files (CDFs) for Affymetrix chips taking into account the most recent genomic sequence information. It re-groups probes in Affymetrix chips into probe sets according to a list of non-redundant verified complete coding sequences available in GenBank and RefSeq. Pre-computed CDFs for several chips are available for download.

DEVELOPER

Genomics and Bioinformatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 AffyProbeMiner

:: MORE INFORMATION

Citation:

Liu HF, et al.,
AffyProbeMiner: a web resource for computing or retrieving accurately redefined Affymetrix probe sets.
Bioinformatics. 2007 Sep 15;23(18):2385-90.