oposSOM Browser of B-Cell Lymphoma

Help Index > oposSOM Browser of B-Cell Lymphoma

Live Demo
Use the search filed in the navigation bar and search for ‘SOM Analysis of 873 Malignant Lymphomas’, which leads to the general description of the data set. The link to the results browser can be found on the right part of the page.

1. Background
On molecular level cancers are complex and molecularly heterogeneous diseases. We present molecular landscapes of different cancer and disease entities provided by our oposSOM analysis pipeline (LHA entry). These landscapes enable discovery of patterns of gene activation, their functional context, phenotype-associations and relations to alternative subtyping and corresponding prognosis.
2. Problem
As an example, we here present the expression and sample landscapes of B-cell lymphoma (850 cases collected in the German consortium ‘Molecular Mechanisms of Malignant B-cell Lymphomas; MMML). B-cell lymphoma is a very heterogeneous disease that decomposes into a multitude of histo-pathological subtypes such as Burkitt’s lymphomas, diffuse large B-cell lymphomas, and follicular lymphomas. The expression and sample landscapes provide an overview about clusters of concertedly regulated genes, which we, in turn, used to refine the subtype classification scheme. Understanding of cancer biology and treatment represents a complex problem relating to gene regulation and dysfunction of cellular processes, and it requires comprehensive tools that allow navigation in the data, their visualization in an intuitive interactive way and, linking to supporting information.
3. Solution
The oposSOM Browser provides this interactive functionality based on a series of bioinformatics tools implemented in the oposSOM-pipeline, which is available as R-package in the Bioconductor repository and on LHA. The beta-version of the Browser demonstrates basic functionalities that will be extended by a series of novel functionalities and other disease entities.
5. Results and Outlook
The oposSOM browser provides an intuitive and easy-to-use tool for discovering molecular data of selected diseases. The beta-version will be extended into a comprising ‘cancer query tool’ which allows for direct comparison of different disease entities in terms of common molecular and functional patterns.
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