TargetMine v1.8.5.0 – Data Warehouse for Candidate Gene Prioritisation and Target Discovery

TargetMine v1.8.5.0

:: DESCRIPTION

TargetMine is an integrated data warehouse for retrieval of targetgenes and proteins for experimental characterisation and drug discovery.It utilises a customised InterMine framework, which enables complicated searches that are difficult to perform with existing tools and it also offers integration of custom annotations and in-house experimental data. TargetMine also facilitates analysis of query gene/protein sets for enriched biological themes and associations, which can be employed for candidate gene prioritisation.

::DEVELOPER

the Mizuguchi Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Server

:: DOWNLOAD

TargetMine

:: MORE INFORMATION

Citation

Chen Y-A, Tripathi LP, Mizuguchi K (2011)
TargetMine, an Integrated Data Warehouse for Candidate Gene Prioritisation and Target Discovery.
PLoS ONE 6(3): e17844. doi:10.1371/journal.pone.0017844

GeneTIER – Expression-based Candidate Gene Prioritisation

GeneTIER

:: DESCRIPTION

GeneTIER replaces the knowledge-based inference traditionally used in candidate disease gene prioritization, instead using experimental data from tissue-specific gene expression datasets.

::DEVELOPER

Ian’s DNA@Leeds

:: SCREENSHOTS

N/a

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

GeneTIER: prioritization of candidate disease genes using tissue-specific gene expression profiles.
Antanaviciute A, Daly C, A Crinnion L, F Markham A, M Watson C, T Bonthron D, M Carr I.
Bioinformatics. 2015 Apr 9. pii: btv196.

Arete 4.0 – An Analysis Toolkit for Network-based Gene Prioritisation

Arete 4.0

:: DESCRIPTION

Arete is an analysis toolkit for network-based gene prioritisation

::DEVELOPER

Laboratory for Medical Science Mathematics

:: SCREENSHOTS

Arete

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • JRE
  • Cytoscape

:: DOWNLOAD

 Arete

:: MORE INFORMATION

Citation

BioData Min. 2017 Jul 6;10:22. doi: 10.1186/s13040-017-0141-9.
Arete – candidate gene prioritization using biological network topology with additional evidence types.
Lysenko A, Boroevich KA, Tsunoda T.