Tag: Scanning

DMAN 5.3 – Differential Scanning Fluorimetry Melting Data analysis

DMAN 5.3

:: DESCRIPTION

DMAN is a program to analyse protein thermal denaturation data obtained by multi-well differential scanning fluorimetry. Experimental repetition schemes on multi-well plates can be defined using an ASCII file or through a graphical user interface (GUI).

::DEVELOPER

Hofmann Laboratory, Eskitis Institute

:: SCREENSHOTS

DMAN

:: REQUIREMENTS

  • linux/ Windows/ MacOsX
  • Java

:: DOWNLOAD

 DMAN

 :: MORE INFORMATION

Citation

Wang, C.K., Weeratunga, S.K., Pacheco, C.M., Hofmann, A. (2012)
DMAN: a Java tool for analysis of multi-well differential scanning fluorimetry experiments.
Bioinformatics 28, 439-440.

ABS-Scan – Webserver for Insilico Binding site Alanine Scanning Mutagenesis

ABS-Scan

:: DESCRIPTION

ABS-Scan performs alanaine scanning mutagenesis for a given protein-ligand complex.

::DEVELOPER

Chandra Lab, Dept. of Biochemistry.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

ABS-Scan: In silico alanine scanning mutagenesis for binding site residues in protein-ligand complex.
Anand P, Nagarajan D, Mukherjee S, Chandra N.
Version 2. F1000Res. 2014 Sep 9 [revised 2014 Dec 1];3:214. doi: 10.12688/f1000research.5165.2. eCollection 2014.

ps_scan 1.87 – PROSITE scanning program

ps_scan 1.87

:: DESCRIPTION

ps_scan (ScanProsite tool) is a perl program used to scan one or several patterns, rules and/or profiles from PROSITE against one or several protein sequnces in Swiss-Prot or FASTA format. It requires two compiled external programs from the PFTOOLS package : “pfscan” used to scan a sequence against a profile library and “psa2msa” which is necessary for the “-o msa” output format only.

::DEVELOPER

ExPASy , Swiss Institute of Bioinformatics

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/Windows/MacOsX
  • Perl

:: DOWNLOAD

 ps_scan

:: MORE INFORMATION

Citation

Alexandre Gattiker, Elisabeth Gasteiger, Amos Bairoch.
ScanProsite: a reference implementation of a PROSITE scanning tool.
Applied Bioinformatics 2002:1(2) 107-108.

MetaCSST – Metagemonic Complex Sequence Scanning Tool

MetaCSST

:: DESCRIPTION

MetaCSST is a tool to predict DGRs in sequenced genomes as well as metagenomic datasets. It is based on Generalized Hidden Markov Model (GHMM), using motif patterns to identify the elements in DGRs

::DEVELOPER

Dr. Chaochun Wei

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

MetaCSST

:: MORE INFORMATION

mpiCUDA-BLASTP 1.0 – Accelerate BLASTP for Scanning Protein Sequence databases on GPU clusters

mpiCUDA-BLASTP 1.0

:: DESCRIPTION

mpiCUDA-BLASTP is designed to accelerate BLASTP for scanning protein sequence databases on GPU clusters, programmed using CUDA, MPI, and OpenMP programming models.

::DEVELOPER

Liu Weiguo (liuweiguo@ntu.edu.sg).

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 mpiCUDA-BLASTP

:: MORE INFORMATION