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The next frontier in the genome sciences will be developing technology that captures novel quantitative biological measurements ... more about genomics
The papers below are a selection of work that has been partially supported by PGFI funding or for which PGFI is listed in the author affiliations.
Gregg, B., B. C. Taylor, B. John, E. D. Tait-Wojno, N. M. Girgis, N. Miller, S. Wagage, D. S. Roos and C. A. Hunter (2013). "Replication And Distribution Of Toxoplasma Gondii In The Small Intestine After Oral Infection With Tissue Cysts." Infection and Immunity. DOI:10.1128/iai.01126-12
Sabin, L. R., Q. Zheng, P. Thekkat, J. Yang, G. J. Hannon, B. D. Gregory, M. Tudor and S. Cherry (2013). "Dicer-2 Processes Diverse Viral RNA Species." PLoS ONE 8(2): e55458.
Bartfai, T., P. T. Buckley and J. Eberwine (2012). "Drug targets: single-cell transcriptomics hastens unbiased discovery." Trends in Pharmacological Sciences 33(1): 9-16.
Charlson, E. S., K. Bittinger, J. Chen, J. M. Diamond, H. Li, R. G. Collman and F. D. Bushman (2012). "Assessing Bacterial Populations in the Lung by Replicate Analysis of Samples from the Upper and Lower Respiratory Tracts." PLoS ONE 7(9): e42786.
Charlson, E. S., J. M. Diamond, K. Bittinger, A. S. Fitzgerald, A. Yadav, A. R. Haas, F. D. Bushman and R. G. Collman (2012). "Lung-enriched Organisms and Aberrant Bacterial and Fungal Respiratory Microbiota after Lung Transplant." American Journal of Respiratory and Critical Care Medicine 186(6): 536-545.
Eberwine, J., D. Lovatt, P. Buckley, H. Dueck, C. Francis, T. K. Kim, J. Lee, M. Lee, K. Miyashiro, J. Morris, T. Peritz, T. Schochet, J. Spaethling, J.-Y. Sul and J. Kim (2012). "Quantitative biology of single neurons." Journal of The Royal Society Interface 9(77): 3165-3183.
Jo, H., N. Meinhardt, Y. Wu, S. Kulkarni, X. Hu, K. E. Low, P. L. Davies, W. F. DeGrado and D. C. Greenbaum (2012). "Development of α-Helical Calpain Probes by Mimicking a Natural Protein–Protein Interaction." Journal of the American Chemical Society 134(42): 17704-17713.
Li, F., Q. Zheng, P. Ryvkin, I. Dragomir, Y. Desai, S. Aiyer, O. Valladares, J. Yang, S. Bambina, L. R. Sabin, J. I. Murray, T. Lamitina, A. Raj, S. Cherry, L. S. Wang and B. D. Gregory (2012). "Global analysis of RNA secondary structure in two metazoans." Cell Rep 1(1): 69-82.
Liu, N., M. Landreh, K. Cao, M. Abe, G. J. Hendriks, J. R. Kennerdell, Y. Zhu, L. S. Wang and N. M. Bonini (2012). "The microRNA miR-34 modulates ageing and neurodegeneration in Drosophila." Nature 482(7386): 519-23.
Liu, X., D.-Y. Jin, Michael T. McManus and Z. Mourelatos (2012). "Precursor MicroRNA-Programmed Silencing Complex Assembly Pathways in Mammals." Molecular Cell 46(4): 507-517.
Merchant, C. A. and M. Drndic (2012). Graphene Nanopore Devices for DNA Sensing. Nanopore-Based Technology. M. E. Gracheva, Humana Press. 870: 211-226.
Minot, S., S. Grunberg, G. D. Wu, J. D. Lewis and F. D. Bushman (2012). "Hypervariable loci in the human gut virome." Proc Natl Acad Sci U S A 109(10): 3962-6.
Moser, T. S., D. Schieffer and S. Cherry (2012). "AMP-Activated Kinase Restricts Rift Valley Fever Virus Infection by Inhibiting Fatty Acid Synthesis." PLoS Pathog 8(4): e1002661.
Nakamoto, M., Ryan H. Moy, J. Xu, S. Bambina, A. Yasunaga, Spencer S. Shelly, B. Gold and S. Cherry (2012). "Virus Recognition by Toll-7 Activates Antiviral Autophagy in Drosophila." Immunity 36(4): 658-667.
Peterfreund, G. L., L. E. Vandivier, R. Sinha, A. J. Marozsan, W. C. Olson, J. Zhu and F. D. Bushman (2012). "Succession in the Gut Microbiome following Antibiotic and Antibody Therapies for Clostridium difficile." PLoS ONE 7(10): e46966.
Richards, J. L., A. L. Zacharias, T. Walton, J. T. Burdick and J. I. Murray (2012). "A quantitative model of normal Caenorhabditis elegans embryogenesis and its disruption after stress." Developmental Biology(Epub 12/7/12): 10.1016/j.ydbio.2012.11.034.
Simola, D. F., C. Ye, N. S. Mutti, K. Dolezal, R. Bonasio, J. Liebig, D. Reinberg and S. L. Berger (2012). "A chromatin link to caste identity in the carpenter ant Camponotus floridanus." Genome Research: doi/10.1101/gr.148361.112
Stoltzfus, J. D., S. Minot, M. Berriman, T. J. Nolan and J. B. Lok (2012). "RNAseq Analysis of the Parasitic Nematode Strongyloides stercoralis Reveals Divergent Regulation of Canonical Dauer Pathways." PLoS Negl Trop Dis 6(10): e1854.
Sul, J.-Y., T. K. Kim, J. H. Lee and J. Eberwine (2012). "Perspectives on cell reprogramming with RNA." Trends in Biotechnology 30(5): 243-249.
Vourekas, A., Q. Zheng, P. Alexiou, M. Maragkakis, Y. Kirino, B. D. Gregory and Z. Mourelatos (2012). "Mili and Miwi target RNA repertoire reveals piRNA biogenesis and function of Miwi in spermiogenesis." Nat Struct Mol Biol 19(8): 773-781.
Xu, J., G. Grant, Leah R. Sabin, B. Gordesky-Gold, A. Yasunaga, M. Tudor and S. Cherry (2012). "Transcriptional Pausing Controls a Rapid Antiviral Innate Immune Response in Drosophila." Cell Host & Microbe 12(4): 531-543.
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Based at the University of Pennsylvania, Penn Genome Frontiers Institute (PGFI) is a university-wide institute dedicated to the advancement of the interdisciplinary field of genomics research. PGFI fosters collaborations and scientific exchange across biology, veterinary medicine, pharmacology, medicine, genetics, microbiology, engineering, physics, chemistry and psychology. Our mission...