Cancer Genomics and Informatics

City of Hope’s Bioinformatics Core (BIC) Facility provides researchers with high-throughput biological data analysis tools, data management, unified cyber-infrastructure, training, as well as trained staff working with multidisciplinary team to facilitate experimental design, information management, data integration, annotation, dissemination and visualization. Our goal is to foster collaborations and provide high-performance parallel computational support for principle investigators and develop modern computational techniques and methodologies for their basic and translational research.
The facilities and their services are available to both City of Hope and non-City of Hope researchers to include in their grant proposals for adequate chargeback.
The Bioinformatics Core Facility provides support in the following areas:
  1. Image Analysis Resources: The BIC provides data analysis and data management support for both the Sequencing Core and individual researchers for Illumina Solexa and Roche/454 as well as for sequence data generated from ABI sequencers.
  2. Microarray Analysis: The BIC provides statistical analysis and biological interpretation for microarray data as well as data integration for various array types.  BIC is also building a microarray database from open-source gene expression data. 
  3. Computer-Assisted Molecular Design Resources: The BIC conducts computer-assisted molecular design analysis, performs 3D structure analysis of protein/DNA/RNA and their drug complexes, and provides large compound libraries and similarity queries for drug discovery.
  4. Molecular Imaging Analysis: The BIC plans to expand services offered to cover imaging analysis (e.g. microscopy analysis, quantification of reporter genes, etc.).
  5. LIMS: The BIC offers Laboratory Information Management Systems (LIMS) for Next-Generation-Sequencing (CBIS), Microarray (caArray), and High-Throughput Screening (CBIS) data.
  6. Software Support: The BIC encourages users to conduct their own analysis, and provides useful software via Citrix and local installation on BIC workstations.  Training sessions are offered for available software and post tutorials/FAQs are posted on the BIC wiki.  BIC also designs high performance cyber-infrastructure and analysis pipelines to automate the collections of experimental information.
  7. Ad hoc Software Development: The BIC develops new tools for users (such as the ArrayTools R package, SeqGene analysis software, the Similarity Search Pipeline, and the siRNA Site Selector).
Research reported in this publication included work performed in the Bioinformatics Core supported by the National Cancer Institute of the National Institutes of Health under award number P30CA33572. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.