This proposal outlines a program to train physician scientists and Ph.D. scientists in genetic/genomic approaches to lung disease. The program builds on the substantial resources in this area at the University of Pennsylvania (Penn). These include the following: the recently established Center for Applied Genomics;the recently established Center for Genetic Analysis of Complex Traits;the Penn Genomics Institute;Penn Center for Bioinformatics;Institute for Translational Medicine;the recently funded Clinical and Translational Science Award;the Center for Sleep and Respiratory Neurobiology;the vibrant research programs of the Pulmonary, Allergy and Critical Care Division at the Hospital of the University of Pennsylvania;and the Pulmonary Division at the Children's Hospital of Philadelphia. The program is a joint one between the School of Medicine at Penn and the Children's Hospital of Philadelphia. The program is directed by an Executive Committee of Dr. Allan Pack (Principal Investigator), Dr. Steven Albelda, Dr. Jason Christie and Dr. Hakon Hakonarson. Faculty involved have expertise in a variety of lung diseases (obstructive sleep apnea, asthma, COPD, interstitial disease, lung cancer, sarcoidosis, lung transplantation) and for many of these diseases there are already DMA samples in a large well characterized patient populations facilitating the research of the trainees. The faculty also include individuals with methodological expertise from the areas of bioinfomatics, genetic epidemiology and statistical genetics. The proposed program for each trainee is flexible and will be based on the trainee's previous educational experience. It will involve a core curriculum of courses, elective courses, laboratory rotations and a mentored research project. A new specific track for genetic/genomic approaches is being established as part of the recently created Master's in Translational Research program. It is envisaged that during the support provided by this K12 award, trainees would apply for their own K/R award. The program is designed to be state of the art and to train the diverse scientific workforce that is required for the interdisciplinary teams of the future.

National Institute of Health (NIH)
National Heart, Lung, and Blood Institute (NHLBI)
Physician Scientist Award (Program) (PSA) (K12)
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Study Section
Special Emphasis Panel (ZHL1-CSR-A (S1))
Program Officer
Colombini-Hatch, Sandra
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University of Pennsylvania
Internal Medicine/Medicine
Schools of Medicine
United States
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Soans, Rajath E; Lim, Diane C; Keenan, Brendan T et al. (2016) Automated Protein Localization of Blood Brain Barrier Vasculature in Brightfield IHC Images. PLoS One 11:e0148411
Cantu, E; Suzuki, Y; Diamond, J M et al. (2016) Protein Quantitative Trait Loci Analysis Identifies Genetic Variation in the Innate Immune Regulator TOLLIP in Post-Lung Transplant Primary Graft Dysfunction Risk. Am J Transplant 16:833-40
Monticelli, Laurel A; Buck, Michael D; Flamar, Anne-Laure et al. (2016) Arginase 1 is an innate lymphoid-cell-intrinsic metabolic checkpoint controlling type 2 inflammation. Nat Immunol 17:656-65
Lim, Diane C; Brady, Daniel C; Po, Pengse et al. (2015) Simulating obstructive sleep apnea patients' oxygenation characteristics into a mouse model of cyclical intermittent hypoxia. J Appl Physiol (1985) 118:544-57
Cantu, Edward; Shah, Rupal J; Lin, Wei et al. (2015) Oxidant stress regulatory genetic variation in recipients and donors contributes to risk of primary graft dysfunction after lung transplantation. J Thorac Cardiovasc Surg 149:596-602
Lim, Diane C; Pack, Allan I (2014) Obstructive sleep apnea and cognitive impairment: addressing the blood-brain barrier. Sleep Med Rev 18:35-48
Diamond, Joshua M; Akimova, Tatiana; Kazi, Altaf et al. (2014) Genetic variation in the prostaglandin E2 pathway is associated with primary graft dysfunction. Am J Respir Crit Care Med 189:567-75
Anafi, Ron C; Lee, Yool; Sato, Trey K et al. (2014) Machine learning helps identify CHRONO as a circadian clock component. PLoS Biol 12:e1001840
Shashaty, Michael G S; Kalkan, Esra; Bellamy, Scarlett L et al. (2014) Computed tomography-defined abdominal adiposity is associated with acute kidney injury in critically ill trauma patients*. Crit Care Med 42:1619-28
Anafi, Ron C; Pellegrino, Renata; Shockley, Keith R et al. (2013) Sleep is not just for the brain: transcriptional responses to sleep in peripheral tissues. BMC Genomics 14:362

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