Drosophila Proteome; Exome Re-sequencing; Sequencing in Nanopores

Abstract

BioTechniquesVol. 46, No. 1 NIH Grant WatchOpen AccessDrosophila Proteome; Exome Re-sequencing; Sequencing in NanoporesK. Nybo† & B. Perry††K. Nybo††is assistant editor at BioTechniques.Search for more papers by this author & B. Perry††††is president of NIH Sales, Rockville, MD.Search for more papers by this authorPublished Online:25 Apr 2018https://doi.org/10.2144/000113054AboutSectionsPDF/EPUB ToolsAdd to favoritesDownload CitationsTrack Citations ShareShare onFacebookTwitterLinkedInReddit BioTechniques and NIH Sales reviewed grants made by the National Institutes of Health during 2008. Here are some highlights from among the largest R01 and R03 grants awarded last year.The Protein Complex Map of the Drosophila Proteome, $2,182,909(5R01HG003616-04, National Human Genome Research Institute)Spyridon Artavanis-Tsakonas (Harvard University Medical School, Boston, MA)Goal: To completely map protein interactions in Drosophila melanogaster. This will be accomplished by isolation of purified proteins that complex with tagged proteins and mass spectrometric analysis.Development and Implementation of Genome-wide Exome Re-sequencing for Medical Genetics, $1,784,943(1R01HL095045-01, National Heart, Lung, and Blood Institute)Stacey Gabriel (Massachusetts Institute of Technology, Cambridge, MA)Goal: To optimize and validate a cost-effective approach for whole-exon sequencing that will be used to sequence hundreds of samples at production scale. Next-generation sequencing technology will be employed. Data acquired from this project will facilitate broad, unbiased surveys of DNA-based variation in disease at a large enough scale to disclose statistically significant correlations.Electronic Sequencing in Nanopores, $1,685,766(2R01HG003703-04 and 5R01HG003703-03, National Human Genome Research Institute)Daniel Branton and Jene Golovchenko (Harvard University, Cambridge, MA)Goal: To create a nanopore detector chip for an instrument that generates base-dependent electronic signals from single strands of DNA as they pass through carbon nanotube probes. Inclusion of the resulting nanopores in the sequencing machine will resolve approximately 104 bases per second, allowing high quality sequencing of a mammalian genome within 20 hours for $1000.Tetrahymena Genome Sequencing Project, $1,373,429(7R01GM067012-04, National Institute of General Medical Sciences)Jonathan Eisen (University of California, Davis, Davis, CA)Goal: To complete whole-genome shotgun-sequencing, assembly, and annotation of the T. thermophila genome. Specifically, the project will result in sequence of high enough quality for post-genomic analysis, discovery of all genes, identification of putative genes, and prediction of gene function. The data will be immediately released on a TIGR website, a manually-curated Tetrahymena Genome Database, and a Tetrahymena-specific section on the NCBI website.Automated Alignment of MRI Rodent Brain to Sterotaxic Atlases, $175,750(1R03EB008134-01A1, National Institute of Biomedical Imaging and BioEngineering)Joseph Madeville (Massachusetts General Hospital, Boston, MA)Goal: To modify an optimized functional rodent MRI analysis scheme for open source distribution to the research community. The software resulting from this project will automate registration of MRI data to standardized stereotaxic coordinates and provide the means for transcribing anatomic regions based on histological atlases. This software will enable the use of extensive analysis packages developed for human MRI for rodent data.Application of Bioinformatics to Retinal Gene Regulation, $159,658(5R03EY015684-03, National Eye Institute)Jiang Qian (Johns Hopkins University, Baltimore, MD)Goal: To develop two algorithms for deciphering the transcriptional regulatory networks associated with retinal gene expression. Completion of the program will identify cis-regulatory motifs and predict transcription factor targets in retinal gene expression. Once established, these regulatory networks will be integrated with microarray data for prediction of transcription factor targets.FiguresReferencesRelatedDetails Vol. 46, No. 1 Follow us on social media for the latest updates Metrics History Published online 25 April 2018 Published in print January 2009 Information© 2009 Author(s)PDF download