MARC Sponsored workshop in Assisting Minority Institutions in Developing Bioinformatics Programs

Workshop Dates: June 27 - July 2, 2011
Location: Pittsburgh Supercomputing Center, 300 South Craig Street, Pittsburgh, PA 15213
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The workshop covers a lot of material. It is still built around our basic sequence analysis core which focuses on the analysis of a gene and/or protein family through the construction and subsequent mining of a high accuracy multiple sequence alignment. A phylogenetic analysis is conducted, as part of the mining, to help discover gene duplication events and any other anomalies in the history of the family. The subsequent data mining of the high quality MSA yields accurate predictions of the residues conferring specificity to each distinct (defined by a gene duplication) subfamily. This is followed with integrating this analysis with structural insights and structural analysis which culminates in understanding the evolution of new protein mechanisms and activities. We have compressed a lot of this material this year - but detailed modules will be available for self study and other uses as self contained modules on our new bioU.psc.edu computer.

Workshop material will be based on case studies including the properties of membranes and membrane proteins, the mechanism of molecular motors, and trafficking in the living cell through water and ion channels, as well as signaling pathways. Required physical concepts, mathematical techniques, and computational methods will be introduced, including force fields and algorithms used in molecular modeling, molecular dynamics simulations on parallel computers, and steered molecular dynamics simulations.

We are also introducing 2 or 3, depending on how you count them, new major topics. New aspects of these topics will be covered each year, with the goal of strengthening the research repertoire of faculty members and students. To this end we will be trying to match interest on each partner campus about where to go with each of these topics during each year.

New topics include:

Next Generation Sequencing technology and experiments,
MICROARRAYS and Proteomics, and
Networks and System Biology.

The internet address (URL) for the Computer Sciences Track calendar and workshop sessions:

https://www.google.com/calendar/embed?src=01mkr7gi554m6vm8cf2a99fp7s%40group.calendar.google.com&ctz=America/New_York

The internet address (URL) for the Biological Sciences Track calendar and workshop sessions:

https://www.google.com/calendar/embed?src=vuuko5p1fj3gof77hfjnqm2c9o%40group.calendar.google.com&ctz=America/New_York

In either case scroll across to the correct range of dates for the week of the workshop - June 27, 2011 through July 3, 2011 and select the weekly display. You should be able to see the calendar, print copies, and keep up with any changes we make or additional information we make available.

If you have specific questions about the workshop content please contact Dr. Hugh Nicholas at Nicholas@psc.edu or at (412) 268-5130 with your questions. Questions about travel and workshop logistics should be addressed to Ms. Christal Banks at cbanks@psc.edu

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