Jonathan Puchalski, MD

Research Organizations

Internal Medicine: Pulmonary, Critical Care & Sleep Medicine: TIP Research Working Group

Yale Cancer Center: Cancer Prevention and Control

Office of Cooperative Research

Research Summary

My research focuses on improving the diagnostic yield of bronchoscopic and pleural procedures, as well as the safety of these procedures. I have an extensive list of publications, including those advocating new techniques we have developed in our interventional pulmonary program.

Extensive Research Description

1. Argento, AC, J Puchalski.Convex Probe EBUS for Centrally Located Parenchymal Lesions without a Bronchus Sign.Respiratory Medicine, 2016:116, 55-58.
2. Bramley, K., Pisani M, Murphy T, Araujo K, Homer R and Puchalski J.Endobronchial Ultrasound-Guided Cautery-Assisted Transbronchial Forceps Biopsies:Safety and Sensitivity Relative to Transbronchial Needle Aspiration.Annals of Thoracic Surgery. 2016
3. Ramaswamy, A, Homer R, Killam J, Pisani MA, Murphy TE, Araujo K, Puchalski J.Comparison of Transbronchial and Cryobiopsies in Evaluation of Diffuse Parenchymal Lung Disease.J Bronchology Interv Pulmonol. 2016; 23(1): 14-21.
4. Ost, DE, Ernst, A, Lei X, Kovitz KL, Benzaquen S, Diaz-Mendoza J, Greenhill S, Toth J, Feller-Kopman D. Puchalski J, Baram D, Karunakara R, Jimenez CA, Filner JJ, Morice RC, Eapen GA, Michaud GC, Estrada-Y-Martin RM, Rafeq S, Grosu HB, Ray C, Gilbert CR, Yarmus LB, Simoff M; AQuIRE Bronchoscopy Registry.Diagnostic Yield and Complications of Bronchoscopy for Peripheral Lung Lesions:Results of the AQuIRE Registry.Am J Respir Crit Care Med. 2016; 193(1): 68-77
5. Argento AC, Murphy TE, Pisani MA, Araujo KL, Puchalski J. Patient-Centered Outcomes Following Thoracentesis.Pleura. 2015.
6. Rabach, L, Siegel M, Puchalski JT, et al.Use of the Blom Tracheotomy Tube with Suction Inner Cannula to Decontaminate Microorganisms from the Subglottic Space. A Proof of Concept.Ann Am Thorac Soc. 2015; 12(6): 859-63.
7. DeBiasi EM, Pisani MA, Murphy TE, Araujo K, Kookoolis A, Argento AC, and Puchalski J.Mortality among patients with pleural effusion undergoing thoracentesis. Eur Respir J. 2015.

8. Goyal, G, Pisani, M, Murphy, T, Araujo, K and Puchalski, J. Advanced Diagnostic Bronchoscopy Using Conscious Sedation and the Laryngeal Nerve Block: Tolerability, Thoroughness and Diagnostic Yield. Lung, 2014.

9. Kookoolis, A, Puchalski, J, Murphy, T, Araujo, K and Pisani, M. Mortality of Hospitalized Patients with Pleural Effusions. Journal of Pulmonary & Respiratory Medicine, 2014.

10. Puchalski JT, Argento AC, Murphy TE, Araujo KLB, Pisani MA.The safety of thoracentesis in patients with uncorrected bleeding risk. Ann Am Thorac Soc. 2013.

11. Cai, G, Wong, R., Chhieng, D., Levy, Gl, Gettinger, S., Herbst, R. Puchalski, JT, Homer, R., and Hui, R.Identification of Epidermal Growth Factor Receptor Mutation, k-Ras Mutation, and EML4-ALK Translocation in the Cytological Specimens of Primary and Metastatic Lung Adenocarcinomas.Cancer Cytopathology.2013.doi: 10.1002/cncy.21288

12. Lee, H.J., Feller-Kopman, D, Shepherd, R. W., Almeida, F., Bechara, R., Berkowitz, D, Chawla, M., Folch, E., Gillespie, C., Haas, A., Lee, R., Majid, A, Malhotra, R., Musani, A., Puchalski, J., Sterman, D, Yarmus, L.Validation of an Interventional Pulmonary Examination. Chest, 2013; 143(6):1667-70.

13. Puchalski, J.T., Argento, A.C., Murphy, T.E., et al.Etiologies of Bilateral Pleural Effusions.Respiratory Medicine, 2013; 107(2): 284-91.

14. Puchalski JT, Argento AC, Murphy TE, Araujo KLB, Pisani MA.The safety of thoracentesis in patients with uncorrected bleeding risk. Ann Am Thorac Soc. 2013.In press.

Selected Publications

• Puchalski, J.T., Argento, A.C., Murphy, T.E., et al. Etiologies of Bilateral Pleural Effusions. Respiratory Medicine, 2013; 107(2): 284-91.
• Puchalski JT, Argento AC, Murphy TE, Araujo KLB, Pisani MA. The safety of thoracentesis in patients with uncorrected bleeding risk. Ann Am Thorac Soc. 2013. In press.
• Puchalski, J.T. and Musani, A. Tracheobronchial Stenosis. Clinics in Chest Medicine. 2013.
• Lee, H.J and Puchalski, J.¸Sterman, D.S. et al. Secondary Carina Y-Stent Placement for Post-Lung-Transplant Bronchial Stenosis. Journal of Bronchology and Interventional Pulmonology. 2012; 19(2): 109-14.
• Puchalski, J., Lee, H.J., and D.H. Sterman. Airway Complications Following Lung Transplantation. Clinics in Chest Medicine. 2011; 32(2): 357-66.
• Puchalski, J.T. and D. Feller-Kopman. The pulmonologist’s diagnostic and therapeutic interventions in lung cancer. Clinics in Chest Medicine, 2011; 32(4): 763-71.

Full List of PubMed Publications

• Ryu C, Boffa D, Bramley K, Pisani M, Puchalski J: A novel endobronchial approach to massive hemoptysis complicating silicone Y-stent placement for tracheobronchomalacia: A case report. Medicine (Baltimore). 2018 Feb. PMID: 29465600
• Ryu C, Sun H, Gulati M, Herazo-Maya JD, Chen Y, Osafo-Addo A, Brandsdorfer C, Winkler J, Blaul C, Faunce J, Pan H, Woolard T, Tzouvelekis A, Antin-Ozerkis DE, Puchalski JT, Slade M, Gonzalez AL, Bogenhagen DF, Kirillov V, Feghali-Bostwick C, Gibson K, Lindell K, Herzog RI, Dela Cruz CS, Mehal W, Kaminski N, Herzog EL, Trujillo G: Extracellular Mitochondrial DNA Is Generated by Fibroblasts and Predicts Death in Idiopathic Pulmonary Fibrosis. Am J Respir Crit Care Med. 2017 Dec 15. PMID: 28783377
• Korde A, Jin L, Zhang JG, Ramaswamy A, Hu B, Kolahian S, Guardela BJ, Herazo-Maya J, Siegfried JM, Stabile L, Pisani MA, Herbst RS, Kaminski N, Elias JA, Puchalski JT, Takyar SS: Lung Endothelial MicroRNA-1 Regulates Tumor Growth and Angiogenesis. Am J Respir Crit Care Med. 2017 Dec 1. PMID: 28853613
• Gao SJ, Kim AW, Puchalski JT, Bramley K, Detterbeck FC, Boffa DJ, Decker RH: Indications for invasive mediastinal staging in patients with early non-small cell lung cancer staged with PET-CT. Lung Cancer. 2017 Jul; 2017 Apr 25. PMID: 28577947
• Puchalski J: Pulmonary Manifestations of Solid Non-Pulmonary Malignancies. Clin Chest Med. 2017 Jun; 2017 Mar 2. PMID: 28477631
• Wahidi MM, Reddy C, Yarmus L, Feller-Kopman D, Musani A, Shepherd RW, Lee H, Bechara R, Lamb C, Shofer S, Mahmood K, Michaud G, Puchalski J, Rafeq S, Cattaneo SM, Mullon J, Leh S, Mayse M, Thomas SM, Peterson B, Light RW: Randomized Trial of Pleural Fluid Drainage Frequency in Patients with Malignant Pleural Effusions. The ASAP Trial. Am J Respir Crit Care Med. 2017 Apr 15. PMID: 27898215
• Harris K, Puchalski J, Sterman D: Recent Advances in Bronchoscopic Treatment of Peripheral Lung Cancers. Chest. 2017 Mar; 2016 Jun 10. PMID: 27292045
• DeBiasi E, Puchalski J: Pleural effusions as markers of mortality and disease severity: a state-of-the-art review. Curr Opin Pulm Med. 2016 Jul. PMID: 27055075
• Argento AC, Puchalski J: Convex probe EBUS for centrally located parenchymal lesions without a bronchus sign. Respir Med. 2016 Jul; 2016 Apr 29. PMID: 27296821
• Bramley K, Pisani MA, Murphy TE, Araujo KL, Homer RJ, Puchalski JT: Endobronchial Ultrasound-Guided Cautery-Assisted Transbronchial Forceps Biopsies: Safety and Sensitivity Relative to Transbronchial Needle Aspiration. Ann Thorac Surg. 2016 May; 2016 Feb 22. PMID: 26912301
• Argento AC, Decker R, Puchalski J: Fiducial Marker Placement Via Convex Probe EBUS. J Bronchology Interv Pulmonol. 2016 Apr. PMID: 27058722
• Ost DE, Ernst A, Lei X, Kovitz KL, Benzaquen S, Diaz-Mendoza J, Greenhill S, Toth J, Feller-Kopman D, Puchalski J, Baram D, Karunakara R, Jimenez CA, Filner JJ, Morice RC, Eapen GA, Michaud GC, Estrada-Y-Martin RM, Rafeq S, Grosu HB, Ray C, Gilbert CR, Yarmus LB, Simoff M, AQuIRE Bronchoscopy Registry.: Diagnostic Yield and Complications of Bronchoscopy for Peripheral Lung Lesions. Results of the AQuIRE Registry. Am J Respir Crit Care Med. 2016 Jan 1. PMID: 26367186
• Ramaswamy A, Homer R, Killam J, Pisani MA, Murphy TE, Araujo K, Puchalski J: Comparison of Transbronchial and Cryobiopsies in Evaluation of Diffuse Parenchymal Lung Disease. J Bronchology Interv Pulmonol. 2016 Jan. PMID: 26705007
• Ryu C, Puchalski J, Perkins M, Honiden S: Management of an elderly patient with respiratory failure due to double aortic arch. Respir Med Case Rep. 2016; 2015 Dec 17. PMID: 27222782
• Argento AC, Puchalski JT: Distal Airway Stenting: How Far Is Too Far? J Bronchology Interv Pulmonol. 2015 Oct. PMID: 26492612
• DeBiasi EM, Pisani MA, Murphy TE, Araujo K, Kookoolis A, Argento AC, Puchalski J: Mortality among patients with pleural effusion undergoing thoracentesis. Eur Respir J. 2015 Aug; 2015 Apr 2. PMID: 25837039
• Rabach L, Siegel MD, Puchalski JT, Towle D, Follert M, Johnson KM, Rademaker AW, Leder SB: Use of the Blom Tracheotomy Tube with Suction Inner Cannula to Decontaminate Microorganisms from the Subglottic Space. A Proof of Concept. Ann Am Thorac Soc. 2015 Jun. PMID: 25849332
• Argento AC, Murphy TE, Pisani MA, Araujo KL, Puchalski J: Patient-Centered Outcomes Following Thoracentesis. Pleura (Thousand Oaks). 2015 Jan-Dec; 2015 Sep 1. PMID: 26767192
• Goyal G, Pisani MA, Murphy TE, Araujo KL, Puchalski JT: Advanced diagnostic bronchoscopy using conscious sedation and the laryngeal nerve block: tolerability, thoroughness, and diagnostic yield. Lung. 2014 Dec; 2014 Jun 28. PMID: 24972639
• Puchalski J: Thoracentesis and the risks for bleeding: a new era. Curr Opin Pulm Med. 2014 Jul. PMID: 24852328
• Kookoolis AS, Puchalski JT, Murphy TE, Araujo KL, Pisani MA: Mortality of Hospitalized Patients with Pleural Effusions. J Pulm Respir Med. 2014 Jun. PMID: 25977841
• Christine Argento A, Kim A, Knauert-Brown M, Boffa D, Siegel MD, Jafari B, Puchalski JT: Recurrent hydrothorax and surgical diaphragmatic repair: report of 2 cases and review of the literature. J Bronchology Interv Pulmonol. 2014 Apr. PMID: 24739690
• Cai G, Wong R, Chhieng D, Levy GH, Gettinger SN, Herbst RS, Puchalski JT, Homer RJ, Hui P: Identification of EGFR mutation, KRAS mutation, and ALK gene rearrangement in cytological specimens of primary and metastatic lung adenocarcinoma. Cancer Cytopathol. 2013 Sep; 2013 Mar 12. PMID: 23495083
• Puchalski J, Musani AI: Tracheobronchial stenosis: causes and advances in management. Clin Chest Med. 2013 Sep; 2013 Jul 3. PMID: 23993823
• Puchalski JT, Argento AC, Murphy TE, Araujo KL, Pisani MA: The safety of thoracentesis in patients with uncorrected bleeding risk. Ann Am Thorac Soc. 2013 Aug. PMID: 23952852
• Lee HJ, Feller-Kopman D, Shepherd RW, Almeida FA, Bechara R, Berkowitz D, Chawla M, Folch E, Haas A, Gillespie C, Lee R, Majid A, Malhotra R, Musani A, Puchalski J, Sterman D, Yarmus L: Validation of an interventional pulmonary examination. Chest. 2013 Jun. PMID: 23348963
• Bramley K, Puchalski JT: Defying gravity: subdiaphragmatic causes of pleural effusions. Clin Chest Med. 2013 Mar. PMID: 23411055
• Puchalski JT, Argento AC, Murphy TE, Araujo KL, Oliva IB, Rubinowitz AN, Pisani MA: Etiologies of bilateral pleural effusions. Respir Med. 2013 Feb; 2012 Dec 7. PMID: 23219348
• Puchalski J, Feller-Kopman D: The pulmonologist's diagnostic and therapeutic interventions in lung cancer. Clin Chest Med. 2011 Dec; 2011 Oct 7. PMID: 22054884
• Puchalski J, Lee HJ, Sterman DH: Airway complications following lung transplantation. Clin Chest Med. 2011 Jun. PMID: 21511095
• Detterbeck F, Puchalski J, Rubinowitz A, Cheng D: Classification of the thoroughness of mediastinal staging of lung cancer. Chest. 2010 Feb. PMID: 20133290

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