The Computational Biology & Bioinformatics Program (CBBP) conducts research and offers services and training in the management and analysis of biological and biomedical data.
The CBBP faculty and staff are a diverse group of interdisciplinary specialists, with research interests that span the life sciences. We have expertise in building infrastructure, developing algorithms, and designing and implementing analytical approaches. The data we handle ranges from species ecology through to genomic medicine; particular focus areas are illustrated in our Research page.
The CBBP brings computer scientists and engineers together with clinicians and medical research scientists to develop the methods and tools needed for the analysis of complex high-dimensional data sets. Click to learn more about CBBP’s collaborative projects.
- Malusa F, Zaki N, Badidi E, Cinti C, Capobianco E. “Time-course Gene Expression Profiling and Networks Dynamics in Demethylated Retinoblastoma cell line.” Oncotarget, 2015 in press.
- Mora A, Taranta M, Zaki N, Cinti C, Capobianco E. “Epigenetically-driven Network Cooperativity: Meta-analysis in Multi-Drug Resistant Osteosarcoma.” Journal of Complex Networks, 2015, in press.
- Dominietto M, Tsinoremas N, Capobianco E. “Integrative Analysis of Cancer Imaging Readouts by Networks.“ Molecular Oncology, 2015, 9(1), 1-16.
- Mora, A., Sicari, R., Cortigiani, L., Carpeggiani, C., Picano, E., Capobianco, E. (2014). “Prognostic Models in Coronary Artery Disease – Cox and Network Approaches.” Royal Society Open Science. DOI: 10.1098/rsos.140270 Published 11 February 2015
- E. Kleiman, D. Salyakina, M. de Heusch, K.L. Hoek, I. Castro, J.A. Wright, E.S. Clark, J.M. Llanes, D. Dykxhoorn, E. Capobianco, J.C. Renauld, W.N. Khan (2014). “Dynamic Transcriptional Program Fosters Peripheral Tolerance and Functional Specialization of Mature Splenic B cell Populations.” or “Distinct transcriptomic features are associated with transitional and mature B-cell populations in the mouse spleen“ Frontiers in Immunology, 11 February 2015,
- Marranci A, Tuccoli , Mercoledi E, Vitiello M, Valdes C, Russo F, Dal Monte M, Pellegrini M, Capobianco E, Tsinoremas N, Poliseno L. “Identification of BRAF 3’UTR isoforms in melanoma.” Journal of Investigative Dermatology, 2015 Jun; 135(6):1694-7. doi: 10.1038/jid.2015.47
- Capobianco E. and Lio’ P. “Comorbidity: Beyond Correlation. Journal of Complex Networks.” 2015: cnu048v1-cnu048. doi: 10.1093/comnet/cnu048
- Clarke B, Valdes C, Dobra A, Clarke J. “A Bayes Testing Approach to Metagenomic Profiling in Bacteria. Statistics and Its Interface.” 2015, In press.
- “Comorbidity: a multidimensional approach,“ presented by E. Capobianco and published in a Cell Journal, provides a novel view of comorbidity. Abstract
- Human Genome Clinical Annotation Tool, (h-GCAT). h-GCAT is an online tool designed for the analysis of whole exome/genome sequencing data obtained from families affected by genetic disorder(s). Integrated with several important clinical and biological databases, h-GCAT provides the user with a relatively simple and intuitive interface to come down to a manageable gene list from the huge dataset.
- SNP evaluation tool. The Genomic Oligoarray and SNP array evaluation tool was developed by Zhijie Jiang and Nick Tsinoremas in the collaboration with Klaas Wierenga at University of Oklahoma. The tool can spot disease causative genes on runs of homozygosity detected by SNP arrays. Currently the tool has 1000 registered users across the world.