PINA 3.0 – Protein Interaction Network Analysis platform

PINA 3.0

:: DESCRIPTION

PINA is an integrated platform for protein-protein interaction network construction, filtering, analysis, visualization and management.

::DEVELOPER

Center for Cancer Bioinformatics

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Du Y, Cai M, Xing X, Ji J, Yang E, Wu J.
PINA 3.0: mining cancer interactome.
Nucleic Acids Res. 2021 Jan 8;49(D1):D1351-D1357. doi: 10.1093/nar/gkaa1075. PMID: 33231689; PMCID: PMC7779002.

Cowley, M.J., Pinese, M., Kassahn, K.S., Waddell, N., Pearson, J.V., Grimmond, S.M., Biankin, A.V., Hautaniemi, S. and Wu, J. (2012)
PINA v2.0: mining interactome modules.
Nucleic Acids Res, 40, D862-865.

KNIME 3.1.2 – open-source data Analysis Platform for Next-generation Sequencing data analysis

KNIME 3.1.2

:: DESCRIPTION

KNIME (Konstanz Information Miner) is a user-friendly and comprehensive open-source data integration, processing, analysis, and exploration platform. It has recently been updated with new functionality and workflows that open the door to performing next generation sequencing analysis using the KNIME framework.

::DEVELOPER

(bernd.jagla@pasteur.fr) Departement Génomes et Génétique, Institut Pasteur

:: SCREENSHOTS

:: REQUIREMENTS

Linux/ Windows/MacOsX

:: DOWNLOAD

KNIME , Extending KNIME

:: MORE INFORMATION

Citation

Bioinformatics. 2011 Oct 15;27(20):2907-9. doi: 10.1093/bioinformatics/btr478. Epub 2011 Aug 27.
Extending KNIME for next-generation sequencing data analysis.
Jagla B, Wiswedel B, Coppée JY.

GECKO 20050621 – Large-scale Gene Expression Analysis Platform

GECKO 20050621

:: DESCRIPTION

Gecko (Gene Expression: Computation and Knowledge Organization) is a complete, high-capacity centralized gene expression analysis system, developed in response to the needs of a distributed user community.

::DEVELOPER

GECKO team

:: SCREENSHOTS

:: REQUIREMENTS

WIndows/ linux
Apach
Java
Perl
C++ Compiler

:: DOWNLOAD

GECKO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2004 Dec 10;5:195.
GECKO: a complete large-scale gene expression analysis platform.
Theilhaber J, Ulyanov A, Malanthara A, Cole J, Xu D, Nahf R, Heuer M, Brockel C, Bushnell S.

PALMsiever 1.0.1 – Visualization and Analysis Platform for Single-molecule Localization Microscopy

PALMsiever 1.0.1

:: DESCRIPTION

The PALMsiever platform has been designed for the visualization and analysis of single-molecule localization microscopy data. It includes interactive browsing, filtering and analysis, plus the ability to extend its functionality through plugins.

::DEVELOPER

Thomas Pengo

:: SCREENSHOTS

::REQUIREMENTS

Linux / Windows/ MacOsX
MATLAB
DipImage

:: DOWNLOAD

PALMsiever

:: MORE INFORMATION

Citation

PALMsiever: a tool to turn raw data into results for single-molecule localization microscopy.
Pengo T, Holden SJ, Manley S.
Bioinformatics. 2014 Oct 31. pii: btu720.

MetaComp – Metagenomic Comparative Analysis Platform

MetaComp

:: DESCRIPTION

MetaComp is a comparative analysis platform for metagenomic data, which contains multiple tools for

::DEVELOPER

ZhuLab, Peking Uiniversity, Beijing

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux/ Windows
R

:: DOWNLOAD

MetaComp

:: MORE INFORMATION