John R. Erb-Downward, Ph.D. - Publications

Affiliations: 
2005 University of Michigan, Ann Arbor, Ann Arbor, MI 
Area:
Biochemistry, Microbiology Biology

55 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Opron K, Begley LA, Erb-Downward JR, Freeman C, Madapoosi S, Alexis NE, Barjaktarevic I, Graham Barr R, Bleecker ER, Bowler RP, Christenson SA, Comellas AP, Cooper CB, Couper DJ, Doerschuk CM, et al. Lung microbiota associations with clinical features of COPD in the SPIROMICS cohort. Npj Biofilms and Microbiomes. 7: 14. PMID 33547327 DOI: 10.1038/s41522-021-00185-9  0.92
2021 Combs MP, Wheeler DS, Luth JE, Falkowski NR, Walker NM, Erb-Downward JR, Lama VN, Dickson RP. Lung microbiota predict chronic rejection in healthy lung transplant recipients: a prospective cohort study. The Lancet. Respiratory Medicine. PMID 33460570 DOI: 10.1016/S2213-2600(20)30405-7  0.8
2020 Ashley SL, Sjoding MW, Popova AP, Cui TX, Hoostal MJ, Schmidt TM, Branton WR, Dieterle MG, Falkowski NR, Baker JM, Hinkle KJ, Konopka KE, Erb-Downward JR, Huffnagle GB, Dickson RP. Lung and gut microbiota are altered by hyperoxia and contribute to oxygen-induced lung injury in mice. Science Translational Medicine. 12. PMID 32801143 DOI: 10.1126/scitranslmed.aau9959  0.92
2020 Yue M, Kim JH, Evans CR, Kachman M, Erb-Downward JR, D'Souza J, Foxman B, Adar SD, Curtis JL, Stringer KA. Measurement of Short-Chain Fatty Acids in Respiratory Samples: Keep Your Assay above the Water Line. American Journal of Respiratory and Critical Care Medicine. 202: 610-612. PMID 32795141 DOI: 10.1164/rccm.201909-1840LE  0.52
2020 Erb-Downward JR, Falkowski NR, D'Souza JC, McCloskey LM, McDonald RA, Brown CA, Shedden K, Dickson RP, Freeman CM, Stringer KA, Foxman B, Huffnagle GB, Curtis JL, Adar SD. Critical Relevance of Stochastic Effects on Low-Bacterial-Biomass 16S rRNA Gene Analysis. Mbio. 11. PMID 32518181 DOI: 10.1128/mBio.00258-20  0.92
2020 Yue M, Kim JH, Evans CR, Kachman M, Erb-Downward JR, D'Souza J, Foxman B, Adar SD, Curtis JL, Stringer KA. Measurement of Short-chain Fatty Acids in Respiratory Samples. American Journal of Respiratory and Critical Care Medicine. PMID 32343599 DOI: 10.1164/rccm.201909-1840LE  0.52
2019 Dickson RP, Huffnagle GB, Flaherty KR, White ES, Martinez FJ, Erb-Downward JR, Moore BB, O'Dwyer DN. Radiographic Honeycombing and Altered Lung Microbiota in Patients with Idiopathic Pulmonary Fibrosis. American Journal of Respiratory and Critical Care Medicine. PMID 31419390 DOI: 10.1164/rccm.201903-0680LE  0.92
2019 O'Dwyer DN, Ashley SL, Gurczynski SJ, Xia M, Wilke C, Falkowski NR, Norman KC, Arnold KB, Huffnagle GB, Salisbury ML, Han MK, Flaherty KR, White ES, Martinez FJ, Erb-Downward JR, et al. Lung Microbiota Contribute to Pulmonary Inflammation and Disease Progression in Pulmonary Fibrosis. American Journal of Respiratory and Critical Care Medicine. PMID 30789747 DOI: 10.1164/rccm.201809-1650OC  0.92
2018 Diao W, Shen N, Du Y, Erb-Downward JR, Sun X, Guo C, Ke Q, Huffnagle GB, Gyetko MR, He B. Symptom-related sputum microbiota in stable chronic obstructive pulmonary disease. International Journal of Chronic Obstructive Pulmonary Disease. 13: 2289-2299. PMID 30104869 DOI: 10.2147/COPD.S167618  0.92
2018 O'Dwyer DN, Zhou X, Wilke CA, Xia M, Falkowski NR, Norman KC, Arnold KB, Huffnagle GB, Murray S, Erb-Downward JR, Yanik GA, Moore BB, Dickson RP. Lung Dysbiosis, Inflammation, and Injury in Hematopoietic Cell Transplantation. American Journal of Respiratory and Critical Care Medicine. PMID 29878854 DOI: 10.1164/rccm.201712-2456OC  0.92
2018 Dickson RP, Erb-Downward JR, Falkowski NR, Hunter EM, Ashley SL, Huffnagle GB. The Lung Microbiota of Healthy Mice are Highly Variable, Cluster by Environment, and Reflect Variation in Baseline Lung Innate Immunity. American Journal of Respiratory and Critical Care Medicine. PMID 29533677 DOI: 10.1164/rccm.201711-2180OC  0.92
2018 Scales BS, Erb-Downward JR, Falkowski NR, LiPuma JJ, Huffnagle GB. Genome Sequences of 12Strains Isolated from the Lungs of Humans. Genome Announcements. 6. PMID 29449399 DOI: 10.1128/genomeA.01461-17  0.92
2017 Singer BH, Dickson RP, Denstaedt SJ, Newstead MW, Kim K, Falkowski NR, Erb-Downward JR, Schmidt TM, Huffnagle GB, Standiford TJ. Bacterial Dissemination to the Brain in Sepsis. American Journal of Respiratory and Critical Care Medicine. PMID 29232157 DOI: 10.1164/rccm.201708-1559OC  0.92
2017 Pendleton KM, Erb-Downward JR, Bao Y, Branton WR, Falkowski NR, Newton DW, Huffnagle GB, Dickson RP. Reply to Clinical Metagenomics for the Diagnostic of Hospital-acquired Infections: Promises and Hurdles. American Journal of Respiratory and Critical Care Medicine. PMID 28679063 DOI: 10.1164/rccm.201706-1144LE  0.92
2017 Pendleton KM, Erb-Downward JR, Bao Y, Branton WR, Falkowski NR, Newton DW, Huffnagle GB, Dickson RP. Rapid Pathogen Identification in Bacterial Pneumonia Using Real-time Metagenomics. American Journal of Respiratory and Critical Care Medicine. PMID 28475350 DOI: 10.1164/rccm.201703-0537LE  0.92
2017 Dickson RP, Erb-Downward JR, Freeman CM, McCloskey L, Falkowski NR, Huffnagle GB, Curtis JL. Bacterial Topography of the Healthy Human Lower Respiratory Tract. Mbio. 8. PMID 28196961 DOI: 10.1128/mBio.02287-16  0.92
2017 Huang Y, Ma SF, Espindola MS, Vij R, Oldham JM, Huffnagle GB, Erb-Downward JR, Flaherty KR, Moore BB, White ES, Zhou T, Li J, Lussier YA, Han MK, Kaminski N, et al. Microbes Associate with Host Innate Immune Response in Idiopathic Pulmonary Fibrosis. American Journal of Respiratory and Critical Care Medicine. PMID 28157391 DOI: 10.1164/rccm.201607-1525OC  0.92
2016 Dickson RP, Singer BH, Newstead MW, Falkowski NR, Erb-Downward JR, Standiford TJ, Huffnagle GB. Enrichment of the lung microbiome with gut bacteria in sepsis and the acute respiratory distress syndrome. Nature Microbiology. 1: 16113. PMID 27670109 DOI: 10.1038/nmicrobiol.2016.113  0.92
2016 Huang YJ, Erb-Downward JR, Dickson R, Curtis JL, Huffnagle GB, Han MK. Understanding the role of the microbiome in chronic obstructive pulmonary disease: principles, challenges, and future directions. Translational Research : the Journal of Laboratory and Clinical Medicine. PMID 27392936 DOI: 10.1016/j.trsl.2016.06.007  0.92
2016 Dickson RP, Erb-Downward JR, Martinez FJ, Huffnagle GB. The Microbiome and the Respiratory Tract. Annual Review of Physiology. 78: 481-504. PMID 26527186 DOI: 10.1146/annurev-physiol-021115-105238  0.92
2015 Scales BS, Erb-Downward JR, Huffnagle IM, LiPuma JJ, Huffnagle GB. Comparative genomics of Pseudomonas fluorescens subclade III strains from human lungs. Bmc Genomics. 16: 1032. PMID 26644001 DOI: 10.1186/s12864-015-2261-2  0.92
2015 Dickson RP, Erb-Downward JR, Huffnagle GB. Homeostasis and its disruption in the lung microbiome. American Journal of Physiology. Lung Cellular and Molecular Physiology. 309: L1047-55. PMID 26432870 DOI: 10.1152/ajplung.00279.2015  0.92
2015 Scales BS, Erb-Downward JR, LiPuma JJ, Huffnagle GB. Draft Genome Sequences of Five Pseudomonas fluorescens Subclade I and II Strains, Isolated from Human Respiratory Samples. Genome Announcements. 3. PMID 26227600 DOI: 10.1128/genomeA.00837-15  0.92
2015 Dickson RP, Erb-Downward JR, Prescott HC, Martinez FJ, Curtis JL, Lama VN, Huffnagle GB. Intraalveolar Catecholamines and the Human Lung Microbiome. American Journal of Respiratory and Critical Care Medicine. 192: 257-9. PMID 26177175 DOI: 10.1164/rccm.201502-0326LE  0.92
2015 Sze MA, Dimitriu PA, Suzuki M, McDonough JE, Campbell JD, Brothers JF, Erb-Downward JR, Huffnagle GB, Hayashi S, Elliott WM, Cooper J, Sin DD, Lenburg ME, Spira A, Mohn WW, et al. The Host Response to the Lung Microbiome in Chronic Obstructive Pulmonary Disease. American Journal of Respiratory and Critical Care Medicine. PMID 25945594 DOI: 10.1164/rccm.201502-0223OC  0.92
2015 Dickson RP, Erb-Downward JR, Freeman CM, McCloskey L, Beck JM, Huffnagle GB, Curtis JL. Spatial Variation in the Healthy Human Lung Microbiome and the Adapted Island Model of Lung Biogeography. Annals of the American Thoracic Society. 12: 821-30. PMID 25803243 DOI: 10.1513/AnnalsATS.201501-029OC  0.92
2015 Bassis CM, Erb-Downward JR, Dickson RP, Freeman CM, Schmidt TM, Young VB, Beck JM, Curtis JL, Huffnagle GB. Analysis of the upper respiratory tract microbiotas as the source of the lung and gastric microbiotas in healthy individuals. Mbio. 6: e00037. PMID 25736890 DOI: 10.1128/mBio.00037-15  0.92
2015 Scales BS, Erb-Downward JR, Huffnagle IM, LiPuma JJ, Huffnagle GB. Draft Genome Sequences of Seven Pseudomonas fluorescens Subclade III Strains Isolated from Cystic Fibrosis Patients. Genome Announcements. 3. PMID 25635025 DOI: 10.1128/genomeA.01285-14  0.92
2015 McDermott AJ, Higdon KE, Muraglia R, Erb-Downward JR, Falkowski NR, McDonald RA, Young VB, Huffnagle GB. The role of Gr-1(+) cells and tumour necrosis factor-α signalling during Clostridium difficile colitis in mice. Immunology. 144: 704-16. PMID 25399934 DOI: 10.1111/imm.12425  0.92
2014 Wang J, Shen N, Du Y, Erb-Downward JR, Huffnagle GB, Gyetko MR, He B. [Preparation of metagenomic DNA from bronchoalveolar lavage fluids of patients with chronic obstructive pulmonary diseases]. Wei Sheng Wu Xue Bao = Acta Microbiologica Sinica. 54: 943-9. PMID 25345027  0.92
2014 Dickson RP, Erb-Downward JR, Prescott HC, Martinez FJ, Curtis JL, Lama VN, Huffnagle GB. Cell-associated bacteria in the human lung microbiome. Microbiome. 2: 28. PMID 25206976 DOI: 10.1186/2049-2618-2-28  0.92
2014 Dickson RP, Erb-Downward JR, Prescott HC, Martinez FJ, Curtis JL, Lama VN, Huffnagle GB. Analysis of culture-dependent versus culture-independent techniques for identification of bacteria in clinically obtained bronchoalveolar lavage fluid. Journal of Clinical Microbiology. 52: 3605-13. PMID 25078910 DOI: 10.1128/JCM.01028-14  0.92
2014 Dickson RP, Erb-Downward JR, Freeman CM, Walker N, Scales BS, Beck JM, Martinez FJ, Curtis JL, Lama VN, Huffnagle GB. Changes in the lung microbiome following lung transplantation include the emergence of two distinct Pseudomonas species with distinct clinical associations. Plos One. 9: e97214. PMID 24831685 DOI: 10.1371/journal.pone.0097214  0.92
2014 Rao K, Erb-Downward JR, Walk ST, Micic D, Falkowski N, Santhosh K, Mogle JA, Ring C, Young VB, Huffnagle GB, Aronoff DM. The systemic inflammatory response to Clostridium difficile infection. Plos One. 9: e92578. PMID 24643077 DOI: 10.1371/journal.pone.0092578  0.92
2014 Dickson RP, Erb-Downward JR, Huffnagle GB. Towards an ecology of the lung: new conceptual models of pulmonary microbiology and pneumonia pathogenesis. The Lancet. Respiratory Medicine. 2: 238-46. PMID 24621685 DOI: 10.1016/S2213-2600(14)70028-1  0.92
2013 Martinez FJ, Erb-Downward JR, Huffnagle GB. Significance of the microbiome in chronic obstructive pulmonary disease. Annals of the American Thoracic Society. 10: S170-9. PMID 24313769 DOI: 10.1513/AnnalsATS.201306-204AW  0.92
2013 Dickson RP, Erb-Downward JR, Huffnagle GB. The role of the bacterial microbiome in lung disease. Expert Review of Respiratory Medicine. 7: 245-57. PMID 23734647 DOI: 10.1586/ers.13.24  0.92
2013 Sadighi Akha AA, Theriot CM, Erb-Downward JR, McDermott AJ, Falkowski NR, Tyra HM, Rutkowski DT, Young VB, Huffnagle GB. Acute infection of mice with Clostridium difficile leads to eIF2α phosphorylation and pro-survival signalling as part of the mucosal inflammatory response. Immunology. 140: 111-22. PMID 23668260 DOI: 10.1111/imm.12122  0.92
2013 Miyasaka EA, Feng Y, Poroyko V, Falkowski NR, Erb-Downward J, Gillilland MG, Mason KL, Huffnagle GB, Teitelbaum DH. Total parenteral nutrition-associated lamina propria inflammation in mice is mediated by a MyD88-dependent mechanism. Journal of Immunology (Baltimore, Md. : 1950). 190: 6607-15. PMID 23667106 DOI: 10.4049/jimmunol.1201746  0.92
2013 Osterholzer JJ, Olszewski MA, Murdock BJ, Chen GH, Erb-Downward JR, Subbotina N, Browning K, Lin Y, Morey RE, Dayrit JK, Horowitz JC, Simon RH, Sisson TH. Implicating exudate macrophages and Ly-6C(high) monocytes in CCR2-dependent lung fibrosis following gene-targeted alveolar injury. Journal of Immunology (Baltimore, Md. : 1950). 190: 3447-57. PMID 23467934 DOI: 10.4049/jimmunol.1200604  0.92
2012 Erb-Downward JR, Sadighi Akha AA, Wang J, Shen N, He B, Martinez FJ, Gyetko MR, Curtis JL, Huffnagle GB. Use of direct gradient analysis to uncover biological hypotheses in 16s survey data and beyond. Scientific Reports. 2: 774. PMID 23336065 DOI: 10.1038/srep00774  0.92
2012 Erb-Downward JR, Huffnagle GB, Martinez FJ. The microbiota in respiratory disease. American Journal of Respiratory and Critical Care Medicine. 185: 1037-8. PMID 22589308 DOI: 10.1164/rccm.201203-0567ED  0.92
2012 Han MK, Huang YJ, Lipuma JJ, Boushey HA, Boucher RC, Cookson WO, Curtis JL, Erb-Downward J, Lynch SV, Sethi S, Toews GB, Young VB, Wolfgang MC, Huffnagle GB, Martinez FJ. Significance of the microbiome in obstructive lung disease. Thorax. 67: 456-63. PMID 22318161 DOI: 10.1136/thoraxjnl-2011-201183  0.92
2012 Gillilland MG, Erb-Downward JR, Bassis CM, Shen MC, Toews GB, Young VB, Huffnagle GB. Ecological succession of bacterial communities during conventionalization of germ-free mice. Applied and Environmental Microbiology. 78: 2359-66. PMID 22286988 DOI: 10.1128/AEM.05239-11  0.92
2011 Luther J, Owyang SY, Takeuchi T, Cole TS, Zhang M, Liu M, Erb-Downward J, Rubenstein JH, Chen CC, Pierzchala AV, Paul JA, Kao JY. Helicobacter pylori DNA decreases pro-inflammatory cytokine production by dendritic cells and attenuates dextran sodium sulphate-induced colitis. Gut. 60: 1479-86. PMID 21471567 DOI: 10.1136/gut.2010.220087  0.92
2011 Erb-Downward JR, Thompson DL, Han MK, Freeman CM, McCloskey L, Schmidt LA, Young VB, Toews GB, Curtis JL, Sundaram B, Martinez FJ, Huffnagle GB. Analysis of the lung microbiome in the "healthy" smoker and in COPD. Plos One. 6: e16384. PMID 21364979 DOI: 10.1371/journal.pone.0016384  0.92
2010 Milam JE, Erb-Downward JR, Chen GH, Osuchowski MF, McDonald R, Chensue SW, Toews GB, Huffnagle GB, Olszewski MA. CD11c+ cells are required to prevent progression from local acute lung injury to multiple organ failure and death American Journal of Pathology. 176: 218-226. PMID 19948830 DOI: 10.2353/ajpath.2010.081027  0.92
2009 Jain AV, Zhang Y, Fields WB, McNamara DA, Choe MY, Chen GH, Erb-Downward J, Osterholzer JJ, Toews GB, Huffnagle GB, Olszewski MA. Th2 but not Th1 immune bias results in altered lung functions in a murine model of pulmonary Cryptococcus neoformans infection. Infection and Immunity. 77: 5389-99. PMID 19752036 DOI: 10.1128/IAI.00809-09  0.92
2008 Erb-Downward JR, Noggle RM, Williamson PR, Huffnagle GB. The role of laccase in prostaglandin production by Cryptococcus neoformans. Molecular Microbiology. 68: 1428-37. PMID 18410494 DOI: 10.1111/j.1365-2958.2008.06245.x  0.92
2007 Erb-Downward JR, Noverr MC. Characterization of prostaglandin E2 production by Candida albicans. Infection and Immunity. 75: 3498-505. PMID 17470538 DOI: 10.1128/IAI.00232-07  0.92
2007 Erb-Downward JR, Huffnagle GB. Cryptococcus neoformans produces authentic prostaglandin E2 without a cyclooxygenase. Eukaryotic Cell. 6: 346-50. PMID 17158733 DOI: 10.1128/EC.00336-06  0.92
2006 Erb-Downward JR, Huffnagle GB. Role of oxylipins and other lipid mediators in fungal pathogenesis. Future Microbiology. 1: 219-27. PMID 17661667 DOI: 10.2217/17460913.1.2.219  0.92
2005 Arora S, Hernandez Y, Erb-Downward JR, McDonald RA, Toews GB, Huffnagle GB. Role of IFN-gamma in regulating T2 immunity and the development of alternatively activated macrophages during allergic bronchopulmonary mycosis. Journal of Immunology (Baltimore, Md. : 1950). 174: 6346-56. PMID 15879135  0.92
2005 Hernandez Y, Arora S, Erb-Downward JR, McDonald RA, Toews GB, Huffnagle GB. Distinct roles for IL-4 and IL-10 in regulating T2 immunity during allergic bronchopulmonary mycosis. Journal of Immunology (Baltimore, Md. : 1950). 174: 1027-36. PMID 15634927  0.92
2003 Noverr MC, Erb-Downward JR, Huffnagle GB. Production of eicosanoids and other oxylipins by pathogenic eukaryotic microbes. Clinical Microbiology Reviews. 16: 517-33. PMID 12857780 DOI: 10.1128/CMR.16.3.517-533.2003  0.92
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