News and Announcements:
11/18/2024: Some of this previously announced, but VUMC press highlighting 3 new/renewed major grants to our group
09/17/2024: Great news - new major grant for the group! Thankful to NHLBI for supporting a new P01 with w/ @nebanovich lab at Tgen, and @sucre_jen and Margaret Salisbury @VUMC and Tim Blackwell now at U. Michigan! We’ll be digging into the molecular origins of familial pulmonary fibrosis.
08/30/2024: Intriguing new preprint led by Shawyon from @sucre_jen lab exploring aberrant capillaries in BPD
07/10/2024: Osteoclast-like macrophages in silica-associated pulmonary fibrosis - fascinating translational paper in collaboration w/ Franck McCormack & Trapnell labs - out today in Science Advances.
6/23/2024: Excited to be a Research Center for LungMAP3.0 w/ @nebanovich lab, and @sucre_jen.
06/01/2024: Congratulations to Scott on Vanderbilt Faculty Research Scholars Award!
05/30/2024: Our genomes evolve through life - intriguing new preprint led by Dapeng Wang from Imperial College identifying mosaic loss of the Y chromosome in IPF patients
05/19/2024: @ATS_2024 - Great set of exciting presentations from Ana, Franck, Jason, and Scott from VUMC Fibrosis group, Annika from @nebanovich lab, and @sucre_jen and BOLD center
04/05/2024: Terrific synthesis of the advances in genetics and genomics of pulmonary fibrosis is in-press at the American Journal of Respiratory and Critical Care Medicine.
03/28/2024: The sc-eQTL paper is out in Nature Genetics!
02/13/2024: Excited to be a part of the new Biodevelopmental Origins of Lung Disease (BOLD) Center led by Jennifer Sucre from @VUMC Neonatology
12/17/2023: Our first big Xenium-based lung spatial transcriptomic paper out now on bioRxiv - led by Annika Vannan from @NeBanovich and Ruqian Lyu from @davisjmcc group - this has a lot in it: sub-cellular resolution molecular pathology PF and control lungs; innovative cell-agnostic niche/airspace-based analyses
12/14/2023: PSTP Interview Day and soon-to-be alumnus Scott McCall is giving Medicine Grand Rounds
11/10/2023: New paper out in Circulation Research in collaboration with Vineet Agrawal - role for IL1B as driver of Group II pulmonary hypertension
09/18/2023: Exciting new manuscript led by Scott is out on bioRxiv - “HIF2 regulates alveolar repair after repetitive injury”
09/07/2023: Jason’s new paper “Epithelial Yap/Taz are required for functional alveolar regeneration following acute lung injury” is out in JCI Insight!
08/30/2023: Adipose tissue atlas - great new paper on impacts of HIV on adipose tissue structure, function, and risk for metabolic disease - led by Sam Bailin along with Celestine Wanjalla, John Koethe & great team in ID
05/15/2023: Congratulations to Jason - Selected as a Parker B. Francis Fellow!
05/12/2023: Full week ahead @ATS2023 in Washington DC - Franck, Scott, Jason, Jon & Nick B from @Tgen all presenting new work.
01/15/2023: It’s been a banner couple of weeks for IPF/ILD genetics - four important new papers. Led by Qi Liu, WES of 569 FPF families identifies several novel candidate genes, WGS implicates a novel 16p locus in IPF risk, largest WGS study of IPF to date, >2000 individuals identifies overlapping rare and common variant risk for disease - led by Anna Peljto from U. Colorado, and first genome-wide association study of IPF survival (here’s medrxiv link, accepted version coming out online shortly).
12/19/2022: Environmental exposures contribute importantly to FPF risk - new paper led by terrific pulmonary fellow Carla Copeland (now ILD faculty at UAB) and Margaret Salisbury
11/06/2022: FPF relatives demonstrate Accelerated PBMC telomere attrition - intriguing observation led by Margaret Salisbury
9/1/2022: New paper out AJRCCM in collaboration w/ James West and Tim Blackwell labs - F2-Isoprostanes potentiate TGF-b signaling - and can be therapeutically targeted to ameliorate fibrosis!
05/16/2022: More exciting grant news - Jason was awarded a 2022 IPF/ILD Discovery Award!
04/27/22: Interested in immunity in lung fibrosis? Deep multi-omic dive into innate and adaptive immune phenotypes in IPF led by terrific immunology colleague @VUMC Ana Serezani is out in AJRCMB.
04/25/22: Exciting grant news - congratulations to Jason for new Vanderbilt Faculty Research Scholars Award!
03/21/22: Using tissue-based single-cell proteo-genomics to investigate metabolic disease in persons with HIV - beautiful paper led by Sam Bailin, Celestine Wanjalla and John Koethe in Infectious Diseases is out on bioRxiv - the largest adipose-tissue single-cell molecular atlas to date (>280K cells from >90 unique individuals), and explorable!
03/09/2022: Updated Human Lung Cell Atlas is live! Amazing undertaking integrating >500K cells from >100 unique lungs led by Lis Sikkema, Malte Leucken, Sasha Misharin, Fabien Theis & others - map your own data using scArches or Azimuth.
12/15/2021: Amazing paper revealing complex and asynchronous mechanisms and unexpected lineage relationships using scRNA-seq in the developing mouse lung - out today in Development - incredible team effort led by Nick Negretti from @sucre_jen lab, in collaboration with Erin Plosa, John Benjamin, @nebanovich and others
08/19/2021: What happens to cellular programs in precision-cut lung slice (PCLS) culture? New preprint led by Niki Winters from our group explores this.
08/11/2021: Jason’s new paper is in print in iScience - beautiful work implicating YAP interactions in AT1 specification.
08/01/2021: We are very excited about this early disease mechanisms project in collaboration with @NeBanovich Lab at Tgen supported by ThreeLakesFoundation.
07/14/2021: Niki’s new paper in collaboration with Linh Bui from @nebanovich lab examining the role of chronic lung disease in SARS-CoV-2 infection is out today in Nature Communications - amazing joint analysis of >600,000 cells from 210 unique lung donors - with colleagues from Kaminski Lab.
05/25/21: Deep dive into the lung endothelium - terrific collaborative paper led by Jonas Schupp and colleagues from Kaminski Lab out today in Circulation.
03/19/21: Bedside to bench and back - our phase I clinical trial of anti-herpesvirus directed therapy in IPF is out in Annals of the ATS.
01/25/2021: A single-cell atlas of lung development - time-series scRNA-seq across murine lung development is out now on bioRxiv. Incredibly rich dataset in collaboration with Jennifer Sucre, Erin Plosa and John Benjamin, and exciting application of scVelo (from Theis Lab) across developmental time led by Nick Negretti.
12/11/2020: We are recruiting 1 or more post-doc’s or staff scientists to work on emerging projects using single-cell biology approaches to investigate mechanisms of lung injury, repair and fibrosis
11/12/2020: Bryce’s paper investigating mechanisms that regulated susceptibility to SARS-CoV-2 across the lifespan is out in the Journal of Clinical Investigation.
10/20/2020: New insights into how chronic lung disease influences susceptibility and response to SARS-CoV-2 led by Linh Bui @lbui2811 (from @NeBanovich lab) and Niki Winters from @VUMCPulmonary is out on bioRxiv.
07/08/2020: Cover story! Our new paper led by Chris Habermann at VUMC, Austin Gutierrez and Linh Bui from the Banovich Lab at Tgen analyzing scRNA-seq from 20 IPF and 10 control lungs is now out and highlighted on the cover of Science Advances! Outstanding companion paper from Kaminski Lab at Yale with concordant findings. Data from both are explorable in a web-tool at IPFCellAtlas.com.
05/23/2020: Our new preprint in collaboration with Sucre Lab and Banovich Lab is up on bioRxiv - “Age-related expression of SARS-CoV-2 priming protease TMPRSS2 in the developing lung” - using time-series scRNA-seq and quantitative RNA-ISH, we show that SARS-CoV-2 entry factors may be developmentally regulated.
COVID-19 Updates : We are working in collaboration with the Human Cell Atlas Lung Biological Network on defining mechanisms regulating susceptibility to, and severity of, COVID-19. Great work led by Waradon Sungnak and by Carly Ziegler and Samuel Allon, with more on the way.
02/09/2020: Exciting new paper from our group led by Margaret Salisbury identifying potentially modifiable risk factors for ILD among individuals with a familial history of FIP and describing progression characteristics of ILA in these individuals.
11/25/2019: New preprint out in collaboration with Tata Lab at Duke - “Persistence of a novel regeneration-associated transitional cell state in pulmonary fibrosis” - out today on bioRxiv.
10/17/2019: Our IPF scRNA-seq dataset and Kaminski-Rosas datasets are now live on the just-launched IPFCellAtlas website.
9/6/2019: Check out our new paper in collaboration with the Banovich Lab at Tgen - “Single-cell RNA-sequencing reveals profibrotic roles of distinct epithelial and mesenchymal lineages in pulmonary fibrosis” on bioRxiv.