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Bioinformatics

Biological informatics (bioinformatics) concerns the analysis and interpretation of various types of data including nucleotide and amino acid sequences, protein domains, and protein structures. Informatics helps us to understand and organize different types of information, and to see patterns in the information. The Bioinformatics Core aims to provide expert consultation by developing informatics strategy for analysis of complex data sets for RI-INBRE-supported investigators, and educate faculty and students regarding bioinformatics approaches for their research in the RI-INBRE thematic areas.

A wide variety of software and hardware applications are utilized in the analysis and interpretation of informatics data.  Access to commercial bioinformatics software installed on Dell workstations at URI has been granted to RI-INBRE investigators at URI and PUIs. However, the algorithms that analyze sequence repositories are typically web-based as are the databases that are relevant to these sequences. It is anticipated that there will be less dependence on commercially available software packages and a move towards freely available, internet-based, state-of-the-art tools that are linked to the most recent sequence and data repositories worldwide.  Moreover, free and open source software are being developed and increasingly becoming applicable to many bioinformatics applications.  RI-INBRE investigators are encouraged to utilize these software. The Core is committed to supporting investigators by providing consultations, training sessions, and workshops on the use of open-source software. For example, CHIMERA for visualization and Auto-Dock for docking studies are free software that are in use at the Bioinformatics Core.


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Software Packages

Sequencher Sequencher is the premier choice for DNA sequence assembly and analysis. The program helps users go from sequence data to results quickly via an intuitively designed user interface. Features of Sequencher include: Variance Table to find SNPs quickly Reference Sequence for comparative alignment Extensive Sequence Editing functions Ability to import and edit GenBank Features […]

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Workshops & Tutorials

Bioinformatics Workshop – Friday, April 18, 2014 On Friday, April 18, 2014 at 9:00 AM -12:00 PM, Dr. Hany Alashwal, the RI-INBRE Bioinformatics Coordinator, will be conducting a workshop entitled “Introduction to R Programming Language for Bioinformatics”. In this workshop, a gentle introduction to R as a statistical and data analysis platform will be presented. No prior experience in programming […]

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Neuroimaging Resources

The following lectures are available for free from iTunes.  Clicking the link will take you directly to the iTunes Store. 2007 UCLA Advanced Neuroimaging Summer School 2008 UCLA Advanced Neuroimaging Summer School Other Bioinformatics Resources

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Video Conferencing

The video conferencing equipment is being used to link the six RI-INBRE locations for enhanced communication and collaboration.  The equipment is located at each facility and can be used for viewing and transmitting important events such as guest speakers and conferences.  There is also the capability to record video and data streams using the Codian […]

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