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Current Grant Support and Collaborations (Xu)

R01 HL105433-01A1 (Xu)---NIH/NHLBI

Role of SREBP Network in Surfactant Lipid Homeostasis and Lung Maturation
Specific Aims: 1). Identify a transcriptional network controlling perinatal surfactant lipid homeostasis; 2). Determine the mechanisms by which SREBP influences perinatal lung lipid homeostasis; and 3) Determine the critical perinatal regulatory components in the SREBP network.
Collaboration with Drs. James Bridge, Jason Lu and Jeffrey Whitsett

U01 HL122642 (Whitsett) ---NIH/NHLBI

"Lung Map" Atlas Research Center
Aims: 1) Cell and regional-specific nexgen rna analyses to create an "atlas" of gene expression in the murine lung during the canalicular/saccular/alveolar period. 2) Cell and regional-specific nexgen rna analyses to create an "atlas" of gene expression in human fetal lung during the canalicular/saccular/ alveolar period. 3) Systems biology/bioinformatics analysis of NEXGEN RNA sequences to define cell-specific gene expression during murine and human lung formation.
Role: Co-investigator
Multi-center collaborations (detail see Lungmap Roster)

R01HL095580 (Whitsett) ---NIH/NHLBI

Transcriptional Programming of Asthma Related Pathology in Respiratory Epithelia
Aims:1) Mechanisms controlling SPDEF expression and activity during mucus cell etaplasia; 2) Mechanisms by which SPDEF regulates mucus metaplasia and pulmonary inflammation; 3) regulation of innate immunity and lung function by SPDEF during Rhinoviral infection and aero-allergen exposure.
Role: Co-investigator

R01HL086492-01A2 (Weaver) 12/01/08-11/30/13 ---NIH/NHLBI/NIEHS

Role of SFTPC in Pathogenesis of Interstitial Lung Disease
This application tests the central hypothesis that environmental stress superimposed on a SFTPC mutation leads to accumulation of misfolded, cytotoxic SP-C that, in turn, results in Type II epithelial cell injury/death, which is the inciting event in SFTPC-associated familial ILD.
Role: Co-investigator

R01 HL103923-01A1 (Weaver) ---NIH/NHLBI

The Role of Autophagy in the Pathogenesis of interstitial Lung Disease
Aims: 1) Autophagy is an Important Cytoprotective Pathway for Turnover of Misfolded SP-C; 2) Identification of a Novel ER Quality Control Pathway Linked to Autophagy; 3) The Role of Autophagy in Pathogenesis of ILD.
Role: Co-investigator

R01 HL109265 (Wikenheiser-Brokamp) ---NIH/NHLBI

Mechanisms of Dicer1 Function in Lung Organogenesis and Cystic Lung Disease
Aims: 1) Define developmental time periods and epithelial cell types wherein Dicer1 function is critical; 2) Determine the signaling pathways and miRNAs that are deregulated in Dicer1 deficient lungs; 3) Elucidate the role of Dicer1 haploinsufficiency and p53 loss in promoting mesenchymal growth.
Role: Co-investigator

R01 HL108907 (Whitsett)---NIH/NHLBI

Transcriptional Control of Submucosal Gland Formation and Function
Aims: 1) To define the role(s) of PAX9 in SMG formation and differentiation in vivo and in vitro; 2) To identify molecular mechanisms by which PAX9 interacts with transcriptional partners to regulate gene expression in SMGs; 3) To identify the role(s) of PAX9 and an associated gene network in the regulation of SMG formation and function in CF.
Role: Co-investigator

U01 HL110964 (Whitsett)---NIH/NHLBI

Airway Progenitor Cell Profileration and Differentiation During Lung Repair
Aims: 1) Transcriptional control of AEC progenitors, 2) production of antibodies against AEC progenitors, 3) transcriptional and genomic programming of AEC progenitors, and 4) generation and analysis of novel transgenic mouse models for study of proliferation, lineage analysis, homeostasis and repair in conducting airways.
Role: Co-investigator

Perinatal Institute Pilot project (Xu)

Transcriptional networks and gene signatures for preterm birth via amniotic fluid transcriptome analysis.
Aims: 1). Identify the signature genes and tissue markers in normal full term and preterm fetus amniotic fluid; 2). Identify critical transcriptional regulators and targets associated with the preterm birth through transcriptional network analysis.
Collaboration with Drs. Beena Kamath-Rayne and Nathan Salomonis

St. Baldrick's Foundation (Wikenheiser-Brokamp)

Mechanisms Underlying DICER1 Suppression of Pleuropulmonary Blastoma
Role: Co-investigator

RO1HL114898-03S1 (Zorn) ---NIH/NHLBI

Single cell RNA-seq on Xenopus/mouse and human foregut cells at the time of Nkx2.1 induction
Role: Co-investigator

LungMAP Roster

CCHMC Research Centers
  • Jeffrey A. Whitsett, MD, PI
    (Co-Director, Perinatal Institute; Chief, Section of Neonatology, Perinatal and Pulmonary Biology; Interim Director, CCRF, Basic Science, Cincinnati Children's Hospital Medical Center)
  • Steven Potter, Ph.D. MPI
    (Professor, Department Developmental Biology, Pediatrics-Reseach Foundation, Cincinnati Children's Hospital Medical Center)
  • Bruce Aronow, Ph.D. Co-Investigator
    (Co-director, Computational Medicine Center; Professor, Department of Pediatrics, University of Cincinnati)
  • Yan Xu, Ph.D. Co-Investigator
    (Associate Professor, Director of Microarray-Bioinformatics Core of Neonatology, Perinatal and Pulmonary Biology, Perinatal Institution, Cincinnati Children's Hospital Medical Center )
  • John M. Shannon Ph.D.
    (Professor, Neonatology and Pulmonary Biology, Cincinnati Children's Hospital Medical Center)
  • Anne Karina Perl Ph.D.
    (Assistant Professor, Neonatology and Pulmonary Biology, Cincinnati Children's Hospital Medical Center)
  • Susan Wert Ph.D.
    (Associate Professor, Neonatology and Pulmonary Biology, Cincinnati Children's Hospital Medical Center)
  • Minzhe Guo Ph.D.
  • Yina Du
  • Yunguan Wang
  • Eric Brunskill
  • Joseph A. Kitzmiller
  • Phillip Dexheimer
URMC: Rochester
  • Gloria S. Pryhuber, MD, PI
    (Professor, Pediatrics and Environmental Medicine, University of Rochester Medical Center)
  • John Lonsdale, Co-Investigator
    (Vice President of Research, The National Disease Research Interchange (NDRI))
  • Jeff Thomas
    (Vice President of Donor Services, The National Disease Research Interchange (NDRI))
  • Gina Dunne Smith
    (General Manager and Director, International Institute for the Advancement of Medicine)
  • Ravi Misra, Ph.D.
    (Research Associate, University of Rochester)
  • Qing Sara Lin, Ph.D.
    (Program Director, Developmental Biology and Pediatrics, Lung Biology and Disease Branch, Division of Lung Diseases, National Heart, Lung & Blood Institute)
UAB & Yale & Pitt & UCSD
  • Namasivayam Ambalavanan MD PI
    (Professor, Departments of Pediatrics, Pathology, and Cell, Developmental, and Integrative Biology, University of Alabama at Birmingham)
  • Naftali Kaminski MD MPI
    (Associate Editor, American Journal of Respiratory and Critical care Medicine, Boehringer-Ingelheim Endowed Professor of Internal Medicine; Chief of Pulmonary, Critical Care and Sleep Medicine, Yale School of Medicine)
  • Scott E. Fraser, Ph.D. Co-Investigator
    (Anna L. Rosen Professor, Biology & Engineering and Applied Science; Director, Rosen Center for Biological Engineering, Beckman Institute, CALIFORNIA INST OF TECHNOLOGY)
Saban Inst. CHLA & USC
  • David Warburton OBE, DSc, MD, MMM, FRCP, FRCS, FRCPCH PI
    (Professor of Pediatrics, Surgery and Craniofacial Biology; Director, Developmental Biology and Regenerative Medicine Program; Director, California Institute for Regenerative Medicine Training Program and Shared Laboratory, Saban Research Institute, Children's Hospital Los Angeles, Keck School of Medicine and Ostrow School of Dentistry, University of Southern California)
  • Wei Shi, Ph.D. Co-Investigator
    (Associate Professor, Surgery, USC Keck School of Medicine, Childrens Hospital Los Angeles)
  • Rex Moats, Ph.D. Co-Investigator
    (Assistant Professor, Research, Radiology, Pathology, & biomedical Engineering, USC Keck School of Medicine)
PNNL & TACC Seattle & Austin
  • Richard A. (Rick) Corley, Ph.D. PI
    (Laboratory Fellow, Systems Toxicology & Exposure Science, Pacific Northwest National Laboratory)
  • Charles Ansong, Ph.D. MPI
    (Senior Research Scientist, Biological Sciences Division, Pacific Northwest National Laboratory)
  • James Carson, Ph.D. MPI
    (Texas Advanced Computing Center)
  • Gail Deutsch, MD, Co-Investigator and Site PI
    (Associate Professor, Pathology, UW Medicine; Associate Director, Fetal Autopsy Services, Seattle Children's Hospital)
Coordinating Cnter Duke & RTI
  • Scott Palmer, MD. MHS PI
    (Associate Professor, Medicine, Division of Pulmonary, Allergy and Critical Care Medicine; Vice Chair for Research, Department of Medicine; Director, Pulmonary Research, Duke Clinical Research Institute)
  • Robert F. Clark, Ph.D. MPI
    (Senior Genetic Epidemiologist, Center for Genomics in Public Health and Medicine, Biostatistics and Epidemiology Division, RTI International)
  • Cliburn Chan, Ph.D.
    (Assistant Professor, Biostatistics and Bioinformatics, Duke University)
  • Grier Page
    (RTI International)
  • Laura Johnson
    (Project Leader, Duke Clinical Research Institute)
  • Jerry Kirchner
    (Project Leader, Duke Clinical Research Institute)
  • Carol Bova Hill, Ph.D.
    (Informatics Project Leader III, Clinical Research Informatics, Duke Clinical Research Institute)