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Bioinformatics Research

Bioinformatics focuses on the development and application of computational tools for the analysis of biomedical data (such as genomic and proteomic information) as well as the study of biological systems. Bioinformatics applications include algorithms, databases and modeling of biological phenomena.

Integrative Analysis of Genomic Data Using Biomedical Domain Knowledge

The main objective of this research project is to develop an informatics/statistics platform that will address the major limitations encountered in the analysis of GWA study data by techniques that can dramatically reduce the number of computations needed and to facilitate user interaction for stepwise guidance of the analysis process. One particular focus of our approach is to explore the use of biomedical domain knowledge, such as pathway information, to supplement statistical analysis and data mining methods in order to address the problem of computational limitations when analyzing GWAS data with the aim of identifying the causes of complex diseases.

Researcher: Valentin Dinu

Collaborators: Jeffrey Kriseman, Graduate Student, ASU; David Craig, Associate Investigator, TGen; John Pearson, Head, Bioinformatics Research Lab, TGen; Daniel Stanzione, director of the Fulton High Performance Computing Initiative, ASU; Dietrich Stephan, Director and Senior Investigator, Neurogenomics Division, TGen; Nicholas J. Carriero, Research Scientist, Computer Science, Yale University; Judy H. Cho, Associate Professor of Internal Medicine and Genetics, Yale University; Josephine J. Hoh, Associate Professor of Public Health and Ophthalmology, Yale University; Matt Holford, CIS Support Specialist, Yale Center for Statistical Genetics and Proteomics, Yale University; Shrikant Mane, Director, Keck Foundation Biotechnology Resource Laboratory, Yale University; Perry L. Miller, Director of Center for Medical Informatics, Yale University; Hongyu Zhao, Professor of Public Health and Genetics, Yale University

For more information: http://www.dinulab.org

CBioC:Collaborative Bio Curation

CBioC (Beta) allows extraction and collaboration for data curation.

Researchers: Chitta Baral, Graciela Gonzalez

For more information: http://cbioc.eas.asu.edu/

BioSigNet

BioSigNet-RRH is a knowledge-based system for representing, reasoning and hypothesizing about signal networks.
It consists of two components: BioSigNet-RR and BioSigNet-H.

Researcher: Chitta Baral

BioQA

BioQA is a prototype that takes a step towards a question answering (QA) system for the genomics domain in which (i) a user can ask questions in English and the semantics of the question is considered in fetching answers (ii) the answers can be facts or passages depending on the type of the question (iii) information are fetched from sources anonymous to the users.

Researchers: Chitta Baral, Graciela Gonzalez

For more information: http://cbioc.eas.asu.edu/bioQA/v2/

Multiple Myeloma project

Researcher: Seungchan Kim

Development of algorithms to identify cellular contexts

Researcher: Seungchan Kim

Development of algorithm for mining of genomic data with biological prior-knowledge

Researchers: Chitta Baral, Seungchan Kim