FEATURE 3.1 – Examine Biological Structures

FEATURE 3.1

:: DESCRIPTION

FEATURE is an automated tools that examines biological structures and produces useful representations of the key biophysical and biochemical features of these structures that are critical for understanding function. The utility of this system extends from medical/pharmaceutical applications (model-based drug design, comparing pharmacological activities) to industrial applications (understanding structural stability, protein engineering).

::DEVELOPER

FEATURE Team

:: SCREENSHOTS

 

:: REQUIREMENTS

  • Windows/ Linux / Mac OsX

:: DOWNLOAD

 FEATURE

:: MORE INFORMATION

Citation:

Halperin I, Glazer DS, Wu S, Altman RB.
The FEATURE framework for protein function annotation: modeling new functions, improving performance, and extending to novel applications.”
BMC Genomics. 9 Suppl 2 S2.

eXamine 2.1.2 – Cytoscape app for Exploring Annotated Modules in Nnetworks

eXamine 2.1.2

:: DESCRIPTION

eXamine is a set-oriented visual analysis approach for annotated modules that displays set membership as contours on top of a node-link layout. eXamine extends upon Self Organizing Maps to simultaneously lay out nodes, links, and set contours.

::DEVELOPER

Centrum Wiskunde & Informatica (CWI)

:: SCREENSHOTS

eXamine

:: REQUIREMENTS

  • Linux/MacOsX/Windows
  • Java
  • Cytoscape

:: DOWNLOAD

 eXamine

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2014 Jul 10;15:201. doi: 10.1186/1471-2105-15-201.
eXamine: exploring annotated modules in networks.
Dinkla K, El-Kebir M, Bucur CI, Siderius M, Smit MJ, Westenberg MA1, Klau GW.