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Genotypes to Phenotypes

Genotypes to Phenotypes

On June 17-19, the team working on the RII Track-2 FEC: Using Biophysical Protein Models to Map Genetic Variation to Phenotypes met in Moscow for their 2nd annual All-Hands meeting. This research is a collaborative effort between the University of Idaho, Brown University and the University of Vermont. There are over 60 participants in the […]

Patterns of Adaptive Evolutio...

Project Team: Craig Miller (Co-PI), Holly Wichman (Co-PI), JT Van Leuven, LuAnn Scott Vaccines are a remarkably effective way to stem the threat posed by infectious diseases. Methods that allow rapid development of vaccines are vital. Synonymous recoding of viral genomes is a recently developed, general, and highly promising strategy for producing live attenuated vaccines. […]

McMaster Project

Project PI: Jagdish Patel This research project is to identify the correct bound conformations of veranamine in signma-1 and 5HT2B receptors. Crystal coordinates of sigma-1 and 5HT2B receptors will be downloaded from the Protein Data Bank. Both of the receptor structures will then be used to perform ordinary molecular dynamics to sample various conformations available. […]

Using Biophysical Protien Mod...

Project Team: Marty Ytreberg (PI), Craig Miller, Brandon Ogbunugafor (University of Vermont), Daniel Weinreich (Brown University) Understanding how genotypes map to organismal phenotypes is one of the great unsolved problems in modern biology. This research is built on the principle that the biophysical properties of proteins represent general, computationally-predictable intermediaries for mapping genotypes to phenotypes. The […]

Comparison of Two Phasitron D...

Project Team: Tao Xing (PI), Gordon Murdoch (co-PI) and Rabijit Dutta (co-PI) With support from Percussionaire Corp based in Sagle, Idaho, the team will test the new Phasitron design. They will compare the pressure and tidal volumes and the net flow entertainment under various lung conditions. They will also explore computational fluid dynamics (CFD) simulations […]

Collaborative Research: A Mat...

Project Team: Scott Nuismer (PI), Chris Remien (Co-PI), James Bull (Co-PI), Andrew Basinski Viral vaccines have had remarkable and long-lasting impacts on human health, resulting in the worldwide eradication of smallpox, the elimination of polio within much of the developed world, and the effective control of many other diseases. Although great strides have been made […]

NIH R00 Project: Causal Infer...

Project Team: Audrey Fu (PI), Bhadur Badsha, Evan Martin In the investigation of the mechanisms behind gene regulation and its impact on diseases, two lines of research have been largely separately carried out in recent years. On the one hand, gene regulatory networks and protein interaction networks have been under extensive study, especially in systems […]

Collaborative Research: Deep-...

Project Team: Christopher J. Marx, Ankur Dalia (Indiana University), Sergey Stolyar, Jeremy Draghi (Brooklyn College), Norma Martinez-Gomez (Michigan State University) Epistasis – non-linear interactions between genotypic changes upon phenotypes –represents a critical challenge to optimization of biological systems, whether by evolution or engineered via synthetic biology. When mutational effects upon growth or product generation depend […]