Medizinische Universität Graz - Research portal
Selected Publication:
SHR Neuro Cancer Cardio Lipid Metab Microb
Jean-Quartier, C; Jeanquartier, F; Holzinger, A.
Open Data for Differential Network Analysis in Glioma.
Int J Mol Sci. 2020; 21(2):
Doi: 10.3390/ijms21020547
[OPEN ACCESS]
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- Leading authors Med Uni Graz
- Jean-Quartier Claire
- Co-authors Med Uni Graz
- Holzinger Andreas
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- Abstract:
- The complexity of cancer diseases demands bioinformatic techniques and translational research based on big data and personalized medicine. Open data enables researchers to accelerate cancer studies, save resources and foster collaboration. Several tools and programming approaches are available for analyzing data, including annotation, clustering, comparison and extrapolation, merging, enrichment, functional association and statistics. We exploit openly available data via cancer gene expression analysis, we apply refinement as well as enrichment analysis via gene ontology and conclude with graph-based visualization of involved protein interaction networks as a basis for signaling. The different databases allowed for the construction of huge networks or specified ones consisting of high-confidence interactions only. Several genes associated to glioma were isolated via a network analysis from top hub nodes as well as from an outlier analysis. The latter approach highlights a mitogen-activated protein kinase next to a member of histondeacetylases and a protein phosphatase as genes uncommonly associated with glioma. Cluster analysis from top hub nodes lists several identified glioma-associated gene products to function within protein complexes, including epidermal growth factors as well as cell cycle proteins or RAS proto-oncogenes. By using selected exemplary tools and open-access resources for cancer research and differential network analysis, we highlight disturbed signaling components in brain cancer subtypes of glioma.
- Find related publications in this database (using NLM MeSH Indexing)
- Brain Neoplasms - genetics
- Brain Neoplasms - metabolism
- Brain Neoplasms - pathology
- Cluster Analysis -
- Computational Biology - methods
- Gene Expression Profiling - methods
- Gene Expression Regulation, Neoplastic -
- Gene Ontology -
- Gene Regulatory Networks -
- Genetic Predisposition to Disease - genetics
- Glioma - genetics
- Glioma - metabolism
- Glioma - pathology
- Humans -
- Protein Interaction Maps - genetics
- Signal Transduction - genetics
- Find related publications in this database (Keywords)
- open data
- cancer research
- differential network analysis
- differential gene expression
- protein-protein interaction
- graph-based analysis
- glioma
- glioblastoma multiforme
- astrocytoma
- biological data integration