LBtope – Prediction of Linear B-cell Epitopes

LBtope

:: DESCRIPTION

LBtope is a web server for predicting and designing B-cell epitopes

::DEVELOPER

LBtope team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PLoS One. 2013 May 7;8(5):e62216. doi: 10.1371/journal.pone.0062216. Print 2013.
Improved method for linear B-cell epitope prediction using antigen’s primary sequence.
Singh H1, Ansari HR, Raghava GP.

DNAPlotter 1.11 – Circular & Linear Interactive Genome Visualisation

DNAPlotter 1.11

:: DESCRIPTION

DNAPlotter is a collaborative project between Jemboss and Artemis. It makes use of the existing circular plot in Jemboss and the Artemis sequence libraries.

::DEVELOPER

the Sanger Institute

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / MacOsX /  Linux
  • Java

:: DOWNLOAD

DNAPlotter

:: MORE INFORMATION

Citation

Carver T, Thomson N, Bleasby A, Berriman M and Parkhill J
DNAPlotter: circular and linear interactive genome visualization.
Bioinformatics (Oxford, England) 2009;25;1;119-20

PALSSE 20090521 – Predictive Assignment of Linear Secondary Structure Elements

PALSSE 20090521

:: DESCRIPTION

PALSSE (Predictive Assignment of Linear Secondary Structure Elements) is a software that delineates secondary structure elements (SSEs) from protein Cα coordinates and specifically addresses the requirements of vector-based protein similarity searches. Our program identifies two types of secondary structures: helix and β-strand, typically those that can be well approximated by vectors. In contrast to traditional secondary structure algorithms, which identify a secondary structure state for every residue in a protein chain, our program attributes residues to linear SSEs. Consecutive elements may overlap, thus allowing residues located at the overlapping region to have more than one secondary structure type.

::DEVELOPER

Grishin Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • python

:: DOWNLOAD

 PALSSE

:: MORE INFORMATION

Citation:

PALSSE: A program to delineate linear secondary structural elements from protein structures
Indranee Majumdar, S Sri Krishna and Nick V Grishin
BMC Bioinformatics 2005, 6:202