January 2012

Apply Now: 2012 Undergraduate Summer Fellowships

Genome Explorations Week

The IGSP Education Office is accepting applications for undergraduate Summer Fellows, as part of its 2012 summer program in partnership with the Duke Center for Systems Biology and all areas of science and policy research in the IGSP. Now entering its 8th year, the 10-week program exposes students to major questions in genome sciences and policy through faculty-mentored research, weekly lectures and discussions, planned social activities and end-of-summer research presentations. Many of the almost 100 alums of the program have continued on in research at Duke or at their home institutions and have gone on to pursue further education and training in science and research. Applications are due by Friday, February 17th.

 

Also a reminder that the IGSP is still accepting proposals for funding innovative activities that advance its interdisciplinary mission across the Duke campus. Proposals that expand participation of Duke faculty in the study of the genome sciences and policy and that catalyze new interactions across campus are particularly encouraged. Applications consisting of the proposal, budget, and supporting CVs are due no later than 6 pm, Friday, January 20th.

 

The latest issue of GenomeLIFE featuring a cover story on Ahmad Hariri's Duke Neurogenetics Study is on stands now. If you haven't seen it yet, pick up or download a copy.

IGSP IN THE NEWS

Premature Babies Harbor Fewer, But More Dangerous Microbes
One of the most comprehensive studies to date of the microbes in extremely low-birthweight infants found that hard-to-treat Candida fungus is often present, as well as some harmful bacteria and parasites. The work conducted in the Genome Sequencing and Analysis Core Resource was supported in part by pilot funds from the IGSP. See also coverage by GenomeWeb and the original study.

Morbidity: A Personal Response
In a Nature Outlook article about wide variation in how people respond to the flu, Geoff Ginsburg says that “the exuberance of the inflammatory response is likely at the root of why we have symptoms of infection.”

Aspirin Genomics Research Study Goes Global
An IGSP study aimed to identify which individuals are most likely to suffer dangerous blood clots despite regular aspirin therapy is about to head overseas.

NIH to Put $416 Million into Gene Sequencing Effort
A story about the NIH's plans to put $416 million into overcoming barriers to clinical genome sequencing mentions an effort at Duke to sequence children with unknown illnesses.


IGSP IN THE LITERATURE

Curated Collection of Yeast Transcription Factor DNA Binding Specificity Data Reveals Novel Structural and Gene Regulatory Insights
In Genome Biology, Raluca Gordân and colleagues analyze in vitro and in vivo transcription factor-DNA binding data reported in previous large-scale studies to generate a comprehensive, curated resource for S. cerevisiae.

Reduced Selective Constraint in Endosymbionts: Elevation in Radical Amino Acid Replacements Occurs Genome-Wide
In this PLoS One report, Jennifer Wernegreen tests the hypothesis that purifying selection against radical amino acid changes is less effective in two insect endosymbiont groups than in related bacteria.

You Never Call, You Never Write: Why Return of 'Omic' Results to Research Participants Is Both a Good Idea and a Moral Imperative
In Personalized Medicine, Misha Angrist argues in favor of full disclosure of genetic and other 'omic' data as a means to engage participants in science and the research enterprise and position them as better stewards of their own health and well-being.

Error Correction in Gene Synthesis Technology
In Trends in Biotechnology, Jingdong Tian and colleagues discuss new trends and promising strategies of error filtration, correction and prevention in de novo gene and genome synthesis.

A Densely Interconnected Genome-Wide Network of MicroRNAs and Oncogenic Pathways Revealed Using Gene Expression Signatures
In PLoS Genetics, Patrick Tan and colleagues in Singapore conclude that gene expression signatures can be used as surrogates of miRNA activity.

Functional Interaction Between Responses to Lactic Acidosis and Hypoxia Regulates Genomic Transcriptional Outputs
Xiaohu Tang, Joe Lucas and Ashley Chi have published a study in Cancer Research showing that a significant portion of the transcriptional response to hypoxia elicited in cancer cells is abolished by simultaneous exposure to lactic acidosis.

Erythrocyte Plasma Membrane-Bound ERK1/2 Activation Promotes ICAM-4-Mediated Sickle Red Cell Adhesion to Endothelium
Arthur Moseley is a collaborator on a report in Blood exploring the mechanism underlying adhesion of sickled red blood cells to the endothelium of blood vessels.

Changes in Gene Expression Associated with Reproductive Maturation in Wild Female Baboons
In Genome Biology and Evolution, Courtney Babbitt, Jenny Tung, Greg Wray and Susan Alberts suggest that adaptive change in the development of the primate ovary may be largely driven at the mechanistic level by selection on gene regulation.

A Genome-Wide Analysis of Open Chromatin in Human Tracheal Epithelial Cells Reveals Novel Candidate Regulatory Elements for Lung Function
Greg Crawford is a collaborator on a study in the journal Thorax using DNase I hypersensitivity mapping followed by deep sequencing to generate a map of open chromatin in primary human tracheal epithelial cells.


SEMINARS & EVENTS

For details and updates on IGSP seminars and events, see the Events Calendar.

A selection of upcoming events:

Thursday, January 5th
Genomic and Personalized Medicine Forum
Howard McLeod from UNC Chapel Hill presents "Adverse drug reactions: Part of medicine or an unacceptable phenomenon?"

Tuesday, January 10th
Tuesday Seminar Series
New IGSP and Biostatistics & Bioinformatics Faculty Member Tim Reddy presents.

Wednesday, January 18th
Systems Biology Seminar
A speaker representing Uwe Ohler's lab will present.

Monday, January 23rd
Computational Biology
Barbara Engelhardt presents the first seminar of the new semester followed by Raluca Gordân on "Plasticity in F-DNA recognition."


FUNDING OPPORTUNITIES

The National Institute of Allergy and Infectious Diseases will fund research and development of new diagnostic and therapeutic countermeasures for use in biodefense efforts against dangerous pathogens and toxins.

The National Science Foundation will continue funding its Plant Genome Research Program.

The National Cancer Institute will provide additional funds for projects focusing on tools that could significantly impact cancer research.


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