Translational Bioinformatics

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Genomic Analysis of Tumours And Cancer Annotation (GATACA)

Tumour Analysis with Galaxy (TAG) is a Galaxy accessible Tumour Analysis workflow which annotates variants.


iFUSE is a web-based fusion gene explorer. Upload your Complete Genomics junctions files, or your FusionMap FusionReport.txt file, and iFUSE will analyze and visualize your fusion gene candidates, and report the resulting sequences on the DNA, RNA and protein levels.


Human Genomic Variation

Huvariome is a database, utilizing latest Oracle 11g technology, resource of rare and common human genetic variation derived from whole genome sequencing data with high coverage and low error rates.


Network Analysis

NetWeAvers is an R package that provides a novel method for analyzing proteomics data integrated with biological networks. The method includes an algorithm for finding dense clusters of proteins and a permutation algorithm to calculate cluster p-values. Optional steps include summarizing quantified peptide values to single protein values and testing for differential expression, such that the data input can simply be a list of identified and quantified peaks.


Immunology

ImmunoGlobulin Galaxy provides a set of tools for easy detection and quantitation of immunoglobulin heavy chain alternative transcripts. This service is available on line (http://nbic.galaxy.nl/s/TAG) and for downloads as a virtual machine as a Galaxy service.


Image Analysis

Áutomated Selection of Hotspots (ASH)ImmunoGlobulin Galaxy provides a set of tools for easy detection and quantitation of immunoglobulin heavy chain alternative transcripts. This service is available on line (http://nbic.galaxy.nl/s/TAG) and for downloads as a virtual machine as a Galaxy service.


Proteomics

MS PRUNA integrated Proteomics Analysis Service (iPAS), to enhance knowledge integration, knowledge-discovery (data integration, annotation and visualization) and build where possible using existing technologies. iPAS will be capable of integrating results from multiple proteomics experiments with reference data (PRIDE), functional annotation and pathway analysis to enhance the biomarker process.