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NSF Bioinformatics Grants, April 16 -- May 13, 2006

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Multi-Way Semilinear Methods with Applications to Microarray Data. Start date: July 1, 2006. Expires: June 30, 2009. Expected total amount: $139,586. Principal investigator: Cun-Hui Zhang. Sponsor: Rutgers University New Brunswick.

Supports development of statistical models, methods, and theory for normalization and significance analysis of microarray data and similar applications. The grantees have proposed and developed a two-way semilinear model for normalization and analysis of cDNA microarray data, and the current project will extend and further develop this methodology.


Identification and Modeling of Cells. Start date: July 1, 2006. Expires: June 30, 2007. Expected total amount: $239,993. Principal investigator: Er-Wei Bai. Sponsor: University of Iowa.

Funds development of an identification method for cell modeling. The approach will build a mathematical model based on cells' physiological and electrical properties and then validate the model experimentally.


Mapping Biological Networks. Start date: May 15, 2006. Expires: April 30, 2007. Expected total amount: $527,452. Principal investigator: Joel Bader. Sponsor: Johns Hopkins University.

Supports development of methods to predict specific interactions between protein transcription factors and DNA regulatory elements purely from genome sequence and inferred protein structure using all-atom, explicit solvent simulations of transcription factors bound to DNA. New algorithms will be developed for protein-DNA simulations and binding site predictions. In a complementary effort, the human protein-protein interaction network will be analyzed at the domain level and the topological organization of protein subunits within protein complexes will be predicted.


Theoretical Studies of Protein Folding. Start date: May 15, 2006. Expires: April 30, 2007. Expected total amount: $861,773. Principal investigator: Harold A. Scheraga. Sponsor: Cornell University.

Project intends to gain an understanding of how inter-residue interactions determine the three-dimensional structure of a globular protein and the pathways from the unfolded polypeptide chain to the final folded conformation. The researchers will use a physics-based approach that is based solely on the global optimization of a potential energy function, without the use of secondary-structure predictions, homology modeling, or threading.

 

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The Scan

Interfering With Invasive Mussels

The Chicago Tribune reports that researchers are studying whether RNA interference- or CRISPR-based approaches can combat invasive freshwater mussels.

Participation Analysis

A new study finds that women tend to participate less at scientific meetings but that some changes can lead to increased involvement, the Guardian reports.

Right Whales' Decline

A research study plans to use genetic analysis to gain insight into population decline among North American right whales, according to CBC.

Science Papers Tie Rare Mutations to Short Stature, Immunodeficiency; Present Single-Cell Transcriptomics Map

In Science this week: pair of mutations in one gene uncovered in brothers with short stature and immunodeficiency, and more.