Radiation Oncology Branch is part of CCR. Bioinformatics core is a collaborative resource to support ROB branch and provide service to ROB investigators from NCI and other Institutes access to new technologies, bioinformatics, statistical analysis related to genetics/genomics, and offers access to in-house built software tools.
Bioinformatics analysis: work with research scientists to provide consulting prior to experiments, analysis of high-throughput sequencing, gene expression, metabolomics, proteomics, and other biological data to identify:
- prognostic biomarkers
- transcription factor analysis
- gene set enrichment analysis
- prediction models
- clinical genomics
- meta-analysis
In-house application development: develop applications to enhance research through web applications for data analysis, databases, visualization, and custom analysis tools:
- The Glioma Bio Discovery Portal (Glioma-BioDP) is a resource for accessing and displaying interactive views of brain cancer related high throughput molecular data from The Cancer Genome Atlas (TCGA).
- Query and visualize gene, protein, and microRNA expression profiles.
- Allow molecular, clinical and histological subtype comparisons.
- Clinically relevant molecular profiles and inspection of predicted gene-microRNA regulatory relationships.
- GBM: Search TCGA-GBM dataset by genes and miRNAs
- LGG: Search TCGA-LGG dataset by genes and miRNAs
- GBM vs LGG: Search both TCGA-GBM and TCGA-LGG dataset by genes and compare results between two TCGA brain cancer studies
- SL-BioDP (The Synthetic Lethality BioDiscovery Portal) is a comprehensive web tool for systematic exploration and functional analysis of cancer-specific synthetic lethal (SL) interactions of known cancer susceptibility genes. It hosts SL interactions predicted using DiscoverSL: a machine-learning algorithm for multi-omic TCGA cancer data-driven synthetic lethal interactions. It provides extensive cross-references and user-friendly querying interfaces to support SL-related research. This web portal currently hosts SL interactions for 18 cancer types.