Publications

Selected Publications

Stanford ILD investigators publish their findings across a broad spectrum of research areas, from basic science, to symptom management and quality of life issues

2024

Mooney, J. J., Jacobs, S., Lefebvre, É. A., Cosgrove, G. P., Clark, A., Turner, S. M., Decaris, M., Barnes, C. N., Jurek, M., Williams, B., Duan, H., Kimura, R., Rizzo, G., Searle, G., Wardak, M., & Guo, H. H. (2024). Bexotegrast Shows Dose-dependent Integrin α_vβ₆ Receptor Occupancy in Lungs of Participants with Idiopathic Pulmonary Fibrosis: A Phase 2, Open-Label Clinical Trial. Annals of the American Thoracic Society, 10.1513/AnnalsATS.202409-969OC. Advance online publication. https://doi.org/10.1513/AnnalsATS.202409-969OC

Mooney, et al, 2024, AnnalsATS; 22:265.
PMID: 39499805

2021

Decaris, M. L., Schaub, J. R., Chen, C., Cha, J., Lee, G. G., Rexhepaj, M., Ho, S. S., Rao, V., Marlow, M. M., Kotak, P., Budi, E. H., Hooi, L., Wu, J., Fridlib, M., Martin, S. P., Huang, S., Chen, M., Muñoz, M., Hom, T. F., Wolters, P. J., Desai, T. J., … Turner, S. M. (2021). Dual inhibition of α_vβ₆ and α_vβ₁ reduces fibrogenesis in lung tissue explants from patients with IPF. Respiratory research, 22(1), 265. https://doi.org/10.1186/s12931-021-01863-0

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PMID: 34666752, PMCID: PMC8524858.

Vaidyanathan, S., McCarra, M., & Desai, T. J. (2021). Lung stem cells and therapy for cystic fibrosis. In M. Z. Nikolić & B. L. M. Hogan (Eds.), Lung stem cells in development, health and disease (pp. 306–321). European Respiratory Society. https://doi.org/10.1183/2312508X.10010520

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Jacobs, S. S., & Krishnan, J. A. (2021). Patients Choose Hypoxemia over Social Isolation. Annals of the American Thoracic Society, 18(9), 1460–1461. https://doi.org/10.1513/AnnalsATS.202106-676ED

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PMID: 34468290, PMCID: PMC8489859.

2020

Zhu, L., Chung, M. P., Gagne, L., Guo, H. H., Guenther, Z., Li, S., Jacobs, S., Morisset, J., Mooney, J. J., Raj, R., & Chung, L. (2021). Rituximab Versus Mycophenolate in the Treatment of Recalcitrant Connective Tissue Disease-Associated Interstitial Lung Disease. ACR open rheumatology, 3(1), 3–7. https://doi.org/10.1002/acr2.11210

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PMID: 33274857, PMCID: PMC7811692

Salahudeen, A. A., Choi, S. S., Rustagi, A., Zhu, J., van Unen, V., de la O, S. M., Flynn, R. A., Margalef-Català, M., Santos, A. J. M., Ju, J., Batish, A., Usui, T., Zheng, G. X. Y., Edwards, C. E., Wagar, L. E., Luca, V., Anchang, B., Nagendran, M., Nguyen, K., Hart, D. J., Terry, J. M., Belgrader, P., Ziraldo, S. B., Mikkelsen, T. S., Harbury, P. B., Glenn, J. S., Garcia, K. C., Davis, M. M., Baric, R. S., Sabatti, C., Amieva, M. R., Blish, C. A., Desai, T. J., & Kuo, C. J. (2020). Progenitor identification and SARS-CoV-2 infection in human distal lung organoids. Nature, 588(7839), 670–675. https://doi.org/10.1038/s41586-020-3014-1

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PMID: 33238290; PMCID: PMC8003326.

Juul NH, Stockman CA, Desai TJ. Niche Cells and Signals that Regulate Lung Alveolar Stem Cells In Vivo. Cold Spring Harb Perspect Biol. 2020 Dec 1;12(12):a035717. doi: 10.1101/cshperspect.a035717. Erratum in: Cold Spring Harb Perspect Biol. 2020 May 1;12(5):a040303. doi: 10.1101/cshperspect.a040303. PMID: 32179507; PMCID: PMC7706567.

Nagendran M, Andruska AM, Harbury PB, Desai TJ. Advances in Proximity Ligation in situ Hybridization (PLISH). Bio Protoc. 2020 Nov 5;10(21):e3808. doi: 10.21769/BioProtoc.3808. PMID: 33659462; PMCID: PMC7842654.

Jacobs SS, Krishnan JA, Lederer DJ, Ghazipura M, Hossain T, Tan AM, Carlin B, Drummond MB, Ekström M, Garvey C, Graney BA, Jackson B, Kallstrom T, Knight SL, Lindell K, Prieto-Centurion V, Renzoni EA, Ryerson CJ, Schneidman A, Swigris J, Upson D, Holland AE. Home Oxygen Therapy for Adults with Chronic Lung Disease. An Official American Thoracic Society Clinical Practice Guideline. Am J Respir Crit Care Med. 2020 Nov 15;202(10):e121-e141. doi: 10.1164/rccm.202009-3608ST. Erratum in: Am J Respir Crit Care Med. 2021 Apr 15;203(8):1045-1046. doi: 10.1164/rccm.v203erratum7. PMID: 33185464; PMCID: PMC7667898.

Jacobs SS. Complications of Chronic Cough: Another Call for Treatment Strategies. Chest. 2020 Nov;158(5):1818-1819. doi: 10.1016/j.chest.2020.08.005. PMID: 33160526.

2019

Kimura RH, Wang L, Shen B, Huo L, Tummers W, Filipp FV, Guo HH, Haywood T, Abou-Elkacem L, Baratto L, Habte F, Devulapally R, Witney TH, Cheng Y, Tikole S, Chakraborti S, Nix J, Bonagura CA, Hatami N, Mooney JJ, Desai T, Turner S, Gaster RS, Otte A, Visser BC, Poultsides GA, Norton J, Park W, Stolowitz M, Lau K, Yang E, Natarajan A, Ilovich O, Srinivas S, Srinivasan A, Paulmurugan R, Willmann J, Chin FT, Cheng Z, Iagaru A, Li F, Gambhir SS. Evaluation of integrin αvβ₆ cystine knot PET tracers to detect cancer and idiopathic pulmonary fibrosis. Nat Commun. 2019 Oct 14;10(1):4673. doi: 10.1038/s41467-019-11863-w. PMID: 31611594; PMCID: PMC6791878.

Vaidyanathan S, Salahudeen A… Milla C, Desai TJ, Nayak J, Kuo C, Porteus M. Highly efficient repair of the ΔF508 mutation in airway stem cells of cystic fibrosis patients with functional rescue of the differentiated epithelia. Cell Stem Cell 2019 Dec 11.

Jacobs SS. Clinician Strategies to Improve the Care of Patients Using Supplemental Oxygen. Chest. 2019 Sep;156(3):619-628. doi: 10.1016/j.chest.2019.06.011. Epub 2019 Jun 29. PMID: 31265834.

2018

Nabhan AN, Brownfield DG, Harbury PB, Krasnow MA, Desai TJ. Single-cell Wnt signaling niches maintain stemness of alveolar type 2 cells. Science. 2018 Mar 9;359(6380):1118-1123. doi: 10.1126/science.aam6603. Epub 2018 Feb 1. PMID: 29420258; PMCID: PMC5997265.

Nagendran M, Riordan DP, Harbury PB, Desai TJ. Automated cell-type classification in intact tissues by single-cell molecular profiling. Elife. 2018 Jan 10;7:e30510. doi: 10.7554/eLife.30510. PMID: 29319504; PMCID: PMC5802843.

Jacobs SS, Lindell KO, Collins EG, Garvey CM, Hernandez C, McLaughlin S, Schneidman AM, Meek PM. Patient Perceptions of the Adequacy of Supplemental Oxygen Therapy. Results of the American Thoracic Society Nursing Assembly Oxygen Working Group Survey. Ann Am Thorac Soc. 2018 Jan;15(1):24-32. doi: 10.1513/AnnalsATS.201703-209OC. PMID: 29048941.

Jacobs SS, Lederer DJ, Garvey CM, Hernandez C, Lindell KO, McLaughlin S, Schneidman AM, Casaburi R, Chang V, Cosgrove GP, Devitt L, Erickson KL, Ewart GW, Giordano SP, Harbaugh M, Kallstrom TJ, Kroner K, Krishnan JA, Lamberti JP, Porte P, Prieto-Centurion V, Sherman SE, Sullivan JL, Sward E, Swigris JJ, Upson DJ. Optimizing Home Oxygen Therapy. An Official American Thoracic Society Workshop Report. Ann Am Thorac Soc. 2018 Dec;15(12):1369-1381. doi: 10.1513/AnnalsATS.201809-627WS. PMID: 30499721.

Lindell KO, Collins EG, Catanzarite L, Garvey CM, Hernandez C, Mclaughlin S, Schneidman AM, Meek PM, Jacobs SS. Equipment, access and worry about running short of oxygen: Key concerns in the ATS patient supplemental oxygen survey. Heart Lung. 2019 May-Jun;48(3):245-249. doi: 10.1016/j.hrtlng.2018.12.006. Epub 2018 Dec 28. PMID: 30598231.

2017

Mooney JJ, Collard HR. Counterpoint: Should BAL Be Routinely Performed in the Diagnostic Evaluation of Idiopathic Pulmonary Fibrosis? No. Chest. 2017;152(5):919-922.

Mooney JJ. Hypersensitivity Pneumonitis: Lessons from the Great Imitator in Interstitial Lung Disease. Ann Am ThoracSoc. 2017;14(10):1506-1507.

Raj R, Raparia K, Lynch DA, Brown KK. Surgical Lung Biopsy for Interstitial Lung Diseases. Chest. 2017;151(5):1131-1140.

Mooney JJ, Raimundo K, Chang E, Broder MS. Mechanical Ventilation in Idiopathic Pulmonary Fibrosis: A Nationwide Analysis of Ventilator Use, Outcomes, and Resource Burden. BMC Pulm Med. 2017;17(1):84.

Mooney JJ, Raimundo K, Chang E, Broder MS. Hospital Cost and Length of Stay in Idiopathic Pulmonary Fibrosis.J Med Econ. 2017;20(5);518-524.

2016 and earlier

Raj R, Brown KK. Mortality Related to Surgical Lung Biopsy in Patients with Interstitial Lung Disease. The Devil is in the Denominator.Am J Respir Crit Care Med. 2016;193(10):1082-1084

Mooney JJ, Koth LL. Surgical lung biopsy over bronchoalveolar lavage in chronic hypersensitivity pneumonitis. Am J Respir Crit CareMed. 2014;189(3):371-372.

Ryerson CJ, Vittinghoff E, Ley B, Lee JS, Mooney JJ, Jones KD, Elicker BM, Wolters PJ, Koth LL, King TE Jr, Collard HR. Predicting Survival Across Chronic Interstitial Lung Disease: the ILD GAP Model. Chest. 2014;145(4):723-728.

Chang W, Wei K, Ho L, Berry GJ,Jacobs SS, Chang CH, Rosen GD. A Critical Role for the mTORC2 Pathway in Lung Fibrosis. PLoS One. 2014;9(8):106155

Mooney JJ, Elicker BM, Urbania TH, Agarwal MR, Ryerson CJ, Nguyen MLT, Woodruff PG, Jones KD, CollardHR, King TE Jr, Koth LL. Radiographic Fibrosis Score Predicts Survival in Hypersensitivity Pneumonitis. Chest. 2013;144(2):586-592

Raj R.IgG4 Related Lung Disease.Am J Respir Crit Care Med. 2013;188(5):527-529.

Raj R, Nugent K. Leflunamide-induced Interstitial Lung Disease A Systematic Review.Sarcoidosis Vasc Diffuse Lung Dis. 2013;30(3):167-176.

Ryerson CJ, Urbania TH, Richeldi L,Mooney JJ, Lee JS, Jones KD, Elicker BM, Koth LL, King TE Jr, Walters PJ, Collard HR. Prevalence and prognosis of unclassifiable interstitial lung disease. Eur Respir J.2013;42(3):750-757.

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