Publications

• Single-Cell Profiling Reveals Immune Aberrations in Progressive Idiopathic Pulmonary Fibrosis.Unterman A, Zhao AY, Neumark N, Schupp JC, Ahangari F, Cosme C Jr, Sharma P, Flint J, Stein Y, Ryu C, Ishikawa G, Sumida TS, Gomez JL, Herazo-Maya JD, Dela Cruz CS, Herzog EL, Kaminski N. Am J Respir Crit Care Med. 2024 Aug 15. PMID: 38717443.
• Deep learning prediction of hospital readmissions for asthma and COPD.Lopez K, Li H, Lipkin-Moore Z, Kay S, Rajeevan H, Davis JL, Wilson FP, Rochester CL, Gomez JL. Respir Res. 2023 Dec 13; 2023 Dec 13. PMID: 38093373.
• Shared genetic architecture of blood eosinophil counts and asthma in UK Biobank.Li B, Wang Y, Wang Z, Li X, Kay S, Chupp GL, Zhao H, Gomez JL. ERJ Open Res. 2023 Jul; 2023 Aug 29. PMID: 37650091.
• Single-cell profiling reveals immune aberrations in progressive idiopathic pulmonary fibrosis.Unterman A, Zhao AY, Neumark N, Schupp JC, Ahangari F, Cosme C Jr, Sharma P, Flint J, Stein Y, Ryu C, Ishikawa G, Sumida TS, Gomez JL, Herazo-Maya J, Dela Cruz CS, Herzog EL, Kaminski N. medRxiv. 2023 Apr 29; 2023 Apr 29. PMID: 37163015.
• CD38 Mediates Lung Fibrosis by Promoting Alveolar Epithelial Cell Aging.Cui H, Xie N, Banerjee S, Dey T, Liu RM, Antony VB, Sanders YY, Adams TS, Gomez JL, Thannickal VJ, Kaminski N, Liu G. Am J Respir Crit Care Med. 2022 Aug 15. PMID: 35687485.
• Inhibition of PDIA3 in club cells attenuates osteopontin production and lung fibrosis.Kumar A, Elko E, Bruno SR, Mark ZF, Chamberlain N, Mihavics BK, Chandrasekaran R, Walzer J, Ruban M, Gold C, Lam YW, Ghandikota S, Jegga AG, Gomez JL, Janssen-Heininger YM, Anathy V. Thorax. 2022 Jul; 2021 Aug 16. PMID: 34400514.
• Characterization of the COPD alveolar niche using single-cell RNA sequencing.Sauler M, McDonough JE, Adams TS, Kothapalli N, Barnthaler T, Werder RB, Schupp JC, Nouws J, Robertson MJ, Coarfa C, Yang T, Chioccioli M, Omote N, Cosme C Jr, Poli S, Ayaub EA, Chu SG, Jensen KH, Gomez JL, Britto CJ, Raredon MSB, Niklason LE, Wilson AA, Timshel PN, Kaminski N, Rosas IO. Nat Commun. 2022 Jan 25; 2022 Jan 25. PMID: 35078977.
• SPLUNC1: a novel marker of cystic fibrosis exacerbations.Khanal S, Webster M, Niu N, Zielonka J, Nunez M, Chupp G, Slade MD, Cohn L, Sauler M, Gomez JL, Tarran R, Sharma L, Dela Cruz CS, Egan M, Laguna T, Britto CJ. Eur Respir J. 2021 Nov; 2021 Nov 11. PMID: 33958427.
• Genes, environment, and developmental timing: New insights from translational approaches to understand early origins of respiratory diseases.Gutierrez MJ, Perez GF, Gomez JL, Rodriguez-Martinez CE, Castro-Rodriguez JA, Nino G. Pediatr Pulmonol. 2021 Oct; 2021 Aug 13. PMID: 34388306.
• Mycobacterium abscessus complex: A Review of Recent Developments in an Emerging Pathogen.Victoria L, Gupta A, Gómez JL, Robledo J. Front Cell Infect Microbiol. 2021; 2021 Apr 26. PMID: 33981630.
• Single-cell characterization of a model of poly I:C-stimulated peripheral blood mononuclear cells in severe asthma.Chen A, Diaz-Soto MP, Sanmamed MF, Adams T, Schupp JC, Gupta A, Britto C, Sauler M, Yan X, Liu Q, Nino G, Cruz CSD, Chupp GL, Gomez JL. Respir Res. 2021 Apr 26; 2021 Apr 26. PMID: 33902571.
• IFN Stimulates ACE2 Expression in Pediatric Airway Epithelial Cells.Salka K, Abutaleb K, Chorvinsky E, Thiruvengadam G, Arroyo M, Gomez JL, Gutierrez MJ, Pillai DK, Jaiswal JK, Nino G. Am J Respir Cell Mol Biol. 2021 Apr. PMID: 33544656.
• MicroRNA miR-24-3p reduces DNA damage responses, apoptosis, and susceptibility to chronic obstructive pulmonary disease.Nouws J, Wan F, Finnemore E, Roque W, Kim SJ, Bazan I, Li CX, Skold CM, Dai Q, Yan X, Chioccioli M, Neumeister V, Britto CJ, Sweasy J, Bindra R, Wheelock ÅM, Gomez JL, Kaminski N, Lee PJ, Sauler M. JCI Insight. 2021 Jan 25; 2021 Jan 25. PMID: 33290275.
• Macrophage-derived netrin-1 drives adrenergic nerve-associated lung fibrosis.Gao R, Peng X, Perry C, Sun H, Ntokou A, Ryu C, Gomez JL, Reeves BC, Walia A, Kaminski N, Neumark N, Ishikawa G, Black KE, Hariri LP, Moore MW, Gulati M, Homer RJ, Greif DM, Eltzschig HK, Herzog EL. J Clin Invest. 2021 Jan 4. PMID: 33393489.
• Single-Cell Transcriptional Archetypes of Airway Inflammation in Cystic Fibrosis.Schupp JC, Khanal S, Gomez JL, Sauler M, Adams TS, Chupp GL, Yan X, Poli S, Zhao Y, Montgomery RR, Rosas IO, Dela Cruz CS, Bruscia EM, Egan ME, Kaminski N, Britto CJ. Am J Respir Crit Care Med. 2020 Nov 15. PMID: 32603604.
• Bioactive Plasma Mitochondrial DNA Is Associated With Disease Progression in Scleroderma-Associated Interstitial Lung Disease.Ryu C, Walia A, Ortiz V, Perry C, Woo S, Reeves BC, Sun H, Winkler J, Kanyo JE, Wang W, Vukmirovic M, Ristic N, Stratton EA, Meena SR, Minasyan M, Kurbanov D, Liu X, Lam TT, Farina G, Gomez JL, Gulati M, Herzog EL. Arthritis Rheumatol. 2020 Nov; 2020 Oct 8. PMID: 32602227.
• A Network of Sputum MicroRNAs Is Associated with Neutrophilic Airway Inflammation in Asthma.Gomez JL, Chen A, Diaz MP, Zirn N, Gupta A, Britto C, Sauler M, Yan X, Stewart E, Santerian K, Grant N, Liu Q, Fry R, Rager J, Cohn L, Alexis N, Chupp GL. Am J Respir Crit Care Med. 2020 Jul 1. PMID: 32255668.
• Approaches for integrating heterogeneous RNA-seq data reveal cross-talk between microbes and genes in asthmatic patients.Spakowicz D, Lou S, Barron B, Gomez JL, Li T, Liu Q, Grant N, Yan X, Hoyd R, Weinstock G, Chupp GL, Gerstein M. Genome Biol. 2020 Jun 22; 2020 Jun 22. PMID: 32571363.
• Author Correction: Characterization of Sex-Based Dna Methylation Signatures in the Airways During Early Life.Nino CL, Perez GF, Isaza N, Gutierrez MJ, Gomez JL, Nino G. Sci Rep. 2020 Feb 26; 2020 Feb 26. PMID: 32099017.
• An endothelial microRNA-1-regulated network controls eosinophil trafficking in asthma and chronic rhinosinusitis.Korde A, Ahangari F, Haslip M, Zhang X, Liu Q, Cohn L, Gomez JL, Chupp G, Pober JS, Gonzalez A, Takyar SS. J Allergy Clin Immunol. 2020 Feb. PMID: 32035607.
• Epigenetics in Asthma.Gomez JL. Curr Allergy Asthma Rep. 2019 Nov 27; 2019 Nov 27. PMID: 31776749.
• The DNA repair transcriptome in severe COPD.Sauler M, Lamontagne M, Finnemore E, Herazo-Maya JD, Tedrow J, Zhang X, Morneau JE, Sciurba F, Timens W, Paré PD, Lee PJ, Kaminski N, Bossé Y, Gomez JL. Eur Respir J. 2018 Oct; 2018 Oct 4. PMID: 30190272.
• Reducing protein oxidation reverses lung fibrosis.Anathy V, Lahue KG, Chapman DG, Chia SB, Casey DT, Aboushousha R, van der Velden JLJ, Elko E, Hoffman SM, McMillan DH, Jones JT, Nolin JD, Abdalla S, Schneider R, Seward DJ, Roberson EC, Liptak MD, Cousins ME, Butnor KJ, Taatjes DJ, Budd RC, Irvin CG, Ho YS, Hakem R, Brown KK, Matsui R, Bachschmid MM, Gomez JL, Kaminski N, van der Vliet A, Janssen-Heininger YMW. Nat Med. 2018 Aug; 2018 Jul 9. PMID: 29988126.
• Characterization of Sex-Based Dna Methylation Signatures in the Airways During Early Life.Nino CL, Perez GF, Isaza N, Gutierrez MJ, Gomez JL, Nino G. Sci Rep. 2018 Apr 3; 2018 Apr 3. PMID: 29615635.
• Impaired type I interferon regulation in the blood transcriptome of recurrent asthma exacerbations.Gomez JL, Diaz MP, Nino G, Britto CJ. BMC Med Genomics. 2018 Feb 27; 2018 Feb 27. PMID: 29486764.
• Characterisation of asthma subgroups associated with circulating YKL-40 levels.Gomez JL, Yan X, Holm CT, Grant N, Liu Q, Cohn L, Nezgovorova V, Meyers DA, Bleecker ER, Crisafi GM, Jarjour NN, Rogers L, Reibman J, Chupp GL. Eur Respir J. 2017 Oct; 2017 Oct 12. PMID: 29025889.
• Chronic Obstructive Pulmonary Disease Readmissions and Other Measures of Hospital Quality.Rinne ST, Castaneda J, Lindenauer PK, Cleary PD, Paz HL, Gomez JL. Am J Respir Crit Care Med. 2017 Jul 1. PMID: 28145726.
• Toward Precision Medicine of Symptom Control in Asthma.Gomez JL, Kaminski N. Am J Respir Crit Care Med. 2017 Jan 15. PMID: 28084831.
• Airway Secretory microRNAome Changes during Rhinovirus Infection in Early Childhood.Gutierrez MJ, Gomez JL, Perez GF, Pancham K, Val S, Pillai DK, Giri M, Ferrante S, Freishtat R, Rose MC, Preciado D, Nino G. PLoS One. 2016; 2016 Sep 19. PMID: 27643599.
• National Heart, Lung, and Blood Institute Workshop Summary: Enhancing Opportunities for Training and Retention of a Diverse Biomedical Workforce.Duncan GA, Lockett A, Villegas LR, Almodovar S, Gomez JL, Flores SC, Wilkes DS, Tigno XT. Ann Am Thorac Soc. 2016 Apr. PMID: 27058184.
• Genetic variation in chitinase 3-like 1 (CHI3L1) contributes to asthma severity and airway expression of YKL-40.Gomez JL, Crisafi GM, Holm CT, Meyers DA, Hawkins GA, Bleecker ER, Jarjour N, Cohn L, Chupp GL. J Allergy Clin Immunol. 2015 Jul; 2015 Jan 13. PMID: 25592985.
• Guillain-Barré syndrome mimics primary biliary cirrhosis-related myopathy.Munday WR, DiCapua D, Vortmeyer A, Gomez JL. Oxf Med Case Reports. 2015 Apr; 2015 Apr 23. PMID: 26634144.