Surface Diver – Comparing, and Classifying Proteins according to their Physicochemical Properties

Surface Diver

:: DESCRIPTION

Surface Diver allows describing, comparing, and classifying proteins according to their physicochemical properties without the need of prior 3D structural alignment.

::DEVELOPER

Biomolecular Machines Laboratory 

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 Surface Diver

:: MORE INFORMATION

Citation

Maciej Dlugosz, Joanna Trylska
Electrostatic similarity of proteins: Application of 3D spherical harmonic decomposition,
J. Chem. Phys., 129:015103, 2008

OncodriveROLE – Classifying cancer driver genes into Loss of Function and Activating roles.

OncodriveROLE

:: DESCRIPTION

OncodriveROLE is a machine-learning based approach to classify cancer driver genes into to Activating or Loss of Function roles for cancer gene development.

::DEVELOPER

 The Biomedical Genomics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • R package

:: DOWNLOAD

OncodriveROLE

:: MORE INFORMATION

Citation

Schroeder MP, Rubio-Perez C, Tamborero D, Gonzalez-Perez A, Lopez-Bigas N.
OncodriveROLE classifies cancer driver genes in loss of function and activating mode of action.
Bioinformatics. 2014 Sep 1;30(17):i549-55. doi: 10.1093/bioinformatics/btu467. PMID: 25161246; PMCID: PMC4147920.

CTCM – Classifying Transcripts from Coral Metatranscriptome

CTCM

:: DESCRIPTION

CTCM classifies the transcripts assembled from coral metatranscriptome for coral and symbiodinium based on alignments. CTCM is evaluated by simulated datasets and real datasets, it can genereate more sensitive and specific classification for coral and symbiodinium than existed methods.

::DEVELOPER

Dr. Chaochun Wei

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

CTCM

:: MORE INFORMATION