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Items: 1 to 50 of 151

1.

Molecular analysis of the endobronchial stent microbial biofilm reveals bacterial communities that associate with stent material and frequent fungal constituents.

McGinniss JE, Imai I, Simon-Soro A, Brown MC, Knecht VR, Frye L, Ravindran PM, Dothard MI, Wadell DA, Sohn MB, Li H, Christie JD, Diamond JM, Haas AR, Lanfranco AR, DiBardino DM, Bushman FD, Collman RG.

PLoS One. 2019 May 29;14(5):e0217306. doi: 10.1371/journal.pone.0217306. eCollection 2019.

2.

Placebo-controlled randomized clinical trial testing the efficacy and safety of varenicline for smokers with HIV.

Ashare RL, Thompson M, Serrano K, Leone F, Metzger D, Frank I, Gross R, Hole A, Mounzer K, Collman RG, Wileyto EP, Schnoll R.

Drug Alcohol Depend. 2019 May 7;200:26-33. doi: 10.1016/j.drugalcdep.2019.03.011. [Epub ahead of print]

PMID:
31082665
3.

Redondoviridae, a Family of Small, Circular DNA Viruses of the Human Oro-Respiratory Tract Associated with Periodontitis and Critical Illness.

Abbas AA, Taylor LJ, Dothard MI, Leiby JS, Fitzgerald AS, Khatib LA, Collman RG, Bushman FD.

Cell Host Microbe. 2019 May 8;25(5):719-729.e4. doi: 10.1016/j.chom.2019.04.001.

PMID:
31071295
4.

Differences in the rate of nicotine metabolism among smokers with and without HIV.

Ashare RL, Thompson M, Leone F, Metzger D, Gross R, Mounzer K, Tyndale RF, Lerman C, Mahoney MC, Cinciripini P, George TP, Collman RG, Schnoll R.

AIDS. 2019 May 1;33(6):1083-1088. doi: 10.1097/QAD.0000000000002127.

PMID:
30946162
5.

CD4 receptor diversity in chimpanzees protects against SIV infection.

Bibollet-Ruche F, Russell RM, Liu W, Stewart-Jones GBE, Sherrill-Mix S, Li Y, Learn GH, Smith AG, Gondim MVP, Plenderleith LJ, Decker JM, Easlick JL, Wetzel KS, Collman RG, Ding S, Finzi A, Ayouba A, Peeters M, Leendertz FH, van Schijndel J, Goedmakers A, Ton E, Boesch C, Kuehl H, Arandjelovic M, Dieguez P, Murai M, Colin C, Koops K, Speede S, Gonder MK, Muller MN, Sanz CM, Morgan DB, Atencia R, Cox D, Piel AK, Stewart FA, Ndjango JN, Mjungu D, Lonsdorf EV, Pusey AE, Kwong PD, Sharp PM, Shaw GM, Hahn BH.

Proc Natl Acad Sci U S A. 2019 Feb 19;116(8):3229-3238. doi: 10.1073/pnas.1821197116. Epub 2019 Feb 4.

6.

Molecular analysis of bacterial contamination on stethoscopes in an intensive care unit.

Knecht VR, McGinniss JE, Shankar HM, Clarke EL, Kelly BJ, Imai I, Fitzgerald AS, Bittinger K, Bushman FD, Collman RG.

Infect Control Hosp Epidemiol. 2018 Dec 18:1-7. doi: 10.1017/ice.2018.319. [Epub ahead of print]

PMID:
30560753
7.

Brief Report: Rate of Nicotine Metabolism and Tobacco Use Among Persons With HIV: Implications for Treatment and Research.

Schnoll RA, Thompson M, Serrano K, Leone F, Metzger D, Frank I, Gross R, Mounzer K, Tyndale RF, Weisbrot J, Meline M, Collman RG, Ashare RL.

J Acquir Immune Defic Syndr. 2019 Feb 1;80(2):e36-e40. doi: 10.1097/QAI.0000000000001895.

PMID:
30399039
8.

T cell dynamics and response of the microbiota after gene therapy to treat X-linked severe combined immunodeficiency.

Clarke EL, Connell AJ, Six E, Kadry NA, Abbas AA, Hwang Y, Everett JK, Hofstaedter CE, Marsh R, Armant M, Kelsen J, Notarangelo LD, Collman RG, Hacein-Bey-Abina S, Kohn DB, Cavazzana M, Fischer A, Williams DA, Pai SY, Bushman FD.

Genome Med. 2018 Sep 28;10(1):70. doi: 10.1186/s13073-018-0580-z.

9.

Bidirectional transfer of Anelloviridae lineages between graft and host during lung transplantation.

Abbas AA, Young JC, Clarke EL, Diamond JM, Imai I, Haas AR, Cantu E, Lederer DJ, Meyer K, Milewski RK, Olthoff KM, Shaked A, Christie JD, Bushman FD, Collman RG.

Am J Transplant. 2019 Apr;19(4):1086-1097. doi: 10.1111/ajt.15116. Epub 2018 Oct 8.

PMID:
30203917
10.

Characterisation of the nasal microbiota in granulomatosis with polyangiitis.

Rhee RL, Sreih AG, Najem CE, Grayson PC, Zhao C, Bittinger K, Collman RG, Merkel PA.

Ann Rheum Dis. 2018 Oct;77(10):1448-1453. doi: 10.1136/annrheumdis-2018-213645. Epub 2018 Jul 11.

11.

Of Mice and Men . . . and Microbes: Conclusions and Cautions from a Murine Study of the Lung Microbiome and Microbiome-Immune Interactions.

McGinniss JE, Collman RG.

Am J Respir Crit Care Med. 2018 Aug 15;198(4):419-422. doi: 10.1164/rccm.201803-0586ED. No abstract available.

PMID:
29995432
12.

Marginal Effects of Systemic CCR5 Blockade with Maraviroc on Oral Simian Immunodeficiency Virus Transmission to Infant Macaques.

Brocca-Cofano E, Xu C, Wetzel KS, Cottrell ML, Policicchio BB, Raehtz KD, Ma D, Dunsmore T, Haret-Richter GS, Musaitif K, Keele BF, Kashuba AD, Collman RG, Pandrea I, Apetrei C.

J Virol. 2018 Aug 16;92(17). pii: e00576-18. doi: 10.1128/JVI.00576-18. Print 2018 Sep 1.

13.

Evaluation of a therapy for Idiopathic Chronic Enterocolitis in rhesus macaques (Macaca mulatta) and linked microbial community correlates.

Taylor JM, Clarke EL, Baker K, Lauder A, Kim D, Bailey A, Wu GD, Collman RG, Doyle-Meyers L, Russell-Lodrigue K, Blanchard J, Bushman FD, Bohm R.

PeerJ. 2018 Apr 11;6:e4612. doi: 10.7717/peerj.4612. eCollection 2018.

14.

Loss of CXCR6 coreceptor usage characterizes pathogenic lentiviruses.

Wetzel KS, Yi Y, Yadav A, Bauer AM, Bello EA, Romero DC, Bibollet-Ruche F, Hahn BH, Paiardini M, Silvestri G, Peeters M, Collman RG.

PLoS Pathog. 2018 Apr 16;14(4):e1007003. doi: 10.1371/journal.ppat.1007003. eCollection 2018 Apr.

15.

Allometry and Ecology of the Bilaterian Gut Microbiome.

Sherrill-Mix S, McCormick K, Lauder A, Bailey A, Zimmerman L, Li Y, Django JN, Bertolani P, Colin C, Hart JA, Hart TB, Georgiev AV, Sanz CM, Morgan DB, Atencia R, Cox D, Muller MN, Sommer V, Piel AK, Stewart FA, Speede S, Roman J, Wu G, Taylor J, Bohm R, Rose HM, Carlson J, Mjungu D, Schmidt P, Gaughan C, Bushman JI, Schmidt E, Bittinger K, Collman RG, Hahn BH, Bushman FD.

MBio. 2018 Mar 27;9(2). pii: e00319-18. doi: 10.1128/mBio.00319-18.

16.

SIV Coreceptor Specificity in Natural and Non-Natural Host Infection: Implications for Cell Targeting and Differential Outcomes from Infection.

Wetzel KS, Elliott STC, Collman RG.

Curr HIV Res. 2018;16(1):41-51. doi: 10.2174/1570162X15666171124121805. Review.

PMID:
29173179
17.

Application of "Omics" and Systems Biology to Sarcoidosis Research.

Crouser ED, Fingerlin TE, Yang IV, Maier LA, Nana-Sinkam P, Collman RG, Kaminski N.

Ann Am Thorac Soc. 2017 Dec;14(Supplement_6):S445-S451. doi: 10.1513/AnnalsATS.201707-567OT. Review.

18.

Supraphysiologic control over HIV-1 replication mediated by CD8 T cells expressing a re-engineered CD4-based chimeric antigen receptor.

Leibman RS, Richardson MW, Ellebrecht CT, Maldini CR, Glover JA, Secreto AJ, Kulikovskaya I, Lacey SF, Akkina SR, Yi Y, Shaheen F, Wang J, Dufendach KA, Holmes MC, Collman RG, Payne AS, Riley JL.

PLoS Pathog. 2017 Oct 12;13(10):e1006613. doi: 10.1371/journal.ppat.1006613. eCollection 2017 Oct.

19.

A Summary of the Second Annual HIV Microbiome Workshop.

Williams B, Ghosh M, Boucher CAB, Bushman F, Carrington-Lawrence S, Collman RG, Dandekar S, Dang Q, Malaspina A, Paredes R, Wilson CC, Nowak P, Klatt NR, Lagenaur L, Landay AL.

AIDS Res Hum Retroviruses. 2017 Dec;33(12):1258-1264. doi: 10.1089/aid.2017.0137. Epub 2017 Oct 26.

20.

Microbial Lineages in Sarcoidosis. A Metagenomic Analysis Tailored for Low-Microbial Content Samples.

Clarke EL, Lauder AP, Hofstaedter CE, Hwang Y, Fitzgerald AS, Imai I, Biernat W, Rękawiecki B, Majewska H, Dubaniewicz A, Litzky LA, Feldman MD, Bittinger K, Rossman MD, Patterson KC, Bushman FD, Collman RG.

Am J Respir Crit Care Med. 2018 Jan 15;197(2):225-234. doi: 10.1164/rccm.201705-0891OC.

21.

Optimizing methods and dodging pitfalls in microbiome research.

Kim D, Hofstaedter CE, Zhao C, Mattei L, Tanes C, Clarke E, Lauder A, Sherrill-Mix S, Chehoud C, Kelsen J, Conrad M, Collman RG, Baldassano R, Bushman FD, Bittinger K.

Microbiome. 2017 May 5;5(1):52. doi: 10.1186/s40168-017-0267-5. Review.

22.

Administration of nucleoside-modified mRNA encoding broadly neutralizing antibody protects humanized mice from HIV-1 challenge.

Pardi N, Secreto AJ, Shan X, Debonera F, Glover J, Yi Y, Muramatsu H, Ni H, Mui BL, Tam YK, Shaheen F, Collman RG, Karikó K, Danet-Desnoyers GA, Madden TD, Hope MJ, Weissman D.

Nat Commun. 2017 Mar 2;8:14630. doi: 10.1038/ncomms14630.

23.

Miniaturized devices for point of care molecular detection of HIV.

Mauk M, Song J, Bau HH, Gross R, Bushman FD, Collman RG, Liu C.

Lab Chip. 2017 Jan 31;17(3):382-394. doi: 10.1039/c6lc01239f. Review.

24.

CXCR6-Mediated Simian Immunodeficiency Virus SIVagmSab Entry into Sabaeus African Green Monkey Lymphocytes Implicates Widespread Use of Non-CCR5 Pathways in Natural Host Infections.

Wetzel KS, Yi Y, Elliott STC, Romero D, Jacquelin B, Hahn BH, Muller-Trutwin M, Apetrei C, Pandrea I, Collman RG.

J Virol. 2017 Jan 31;91(4). pii: e01626-16. doi: 10.1128/JVI.01626-16. Print 2017 Feb 15.

25.

The Perioperative Lung Transplant Virome: Torque Teno Viruses Are Elevated in Donor Lungs and Show Divergent Dynamics in Primary Graft Dysfunction.

Abbas AA, Diamond JM, Chehoud C, Chang B, Kotzin JJ, Young JC, Imai I, Haas AR, Cantu E, Lederer DJ, Meyer KC, Milewski RK, Olthoff KM, Shaked A, Christie JD, Bushman FD, Collman RG.

Am J Transplant. 2017 May;17(5):1313-1324. doi: 10.1111/ajt.14076. Epub 2016 Nov 4.

26.

Enrichment of the lung microbiome with oral taxa is associated with lung inflammation of a Th17 phenotype.

Segal LN, Clemente JC, Tsay JC, Koralov SB, Keller BC, Wu BG, Li Y, Shen N, Ghedin E, Morris A, Diaz P, Huang L, Wikoff WR, Ubeda C, Artacho A, Rom WN, Sterman DH, Collman RG, Blaser MJ, Weiden MD.

Nat Microbiol. 2016 Apr 4;1:16031. doi: 10.1038/nmicrobiol.2016.31.

27.

A Summary of the First HIV Microbiome Workshop 2015.

Williams B, Mirmonsef P, Boucher CA, Bushman F, Carrington-Lawrence S, Collman RG, Dandekar S, Dang Q, Malaspina A, Paredes R, Stone A, Landay A.

AIDS Res Hum Retroviruses. 2016 Oct/Nov;32(10-11):935-941. Epub 2016 Jul 14.

28.

Statin modulation of monocyte phenotype and function: implications for HIV-1-associated neurocognitive disorders.

Yadav A, Betts MR, Collman RG.

J Neurovirol. 2016 Oct;22(5):584-596. Epub 2016 Mar 28.

29.

Composition and dynamics of the respiratory tract microbiome in intubated patients.

Kelly BJ, Imai I, Bittinger K, Laughlin A, Fuchs BD, Bushman FD, Collman RG.

Microbiome. 2016 Feb 11;4:7. doi: 10.1186/s40168-016-0151-8.

30.

Coevolutionary dynamics between tribe Cercopithecini tetherins and their lentiviruses.

Takeuchi JS, Ren F, Yoshikawa R, Yamada E, Nakano Y, Kobayashi T, Matsuda K, Izumi T, Misawa N, Shintaku Y, Wetzel KS, Collman RG, Tanaka H, Hirsch VM, Koyanagi Y, Sato K.

Sci Rep. 2015 Nov 4;5:16021. doi: 10.1038/srep16021.

31.
32.

Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals.

Beck JM, Schloss PD, Venkataraman A, Twigg H 3rd, Jablonski KA, Bushman FD, Campbell TB, Charlson ES, Collman RG, Crothers K, Curtis JL, Drews KL, Flores SC, Fontenot AP, Foulkes MA, Frank I, Ghedin E, Huang L, Lynch SV, Morris A, Palmer BE, Schmidt TM, Sodergren E, Weinstock GM, Young VB; Lung HIV Microbiome Project.

Am J Respir Crit Care Med. 2015 Dec 1;192(11):1335-44. doi: 10.1164/rccm.201501-0128OC.

33.

Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis (GRADS) Study. Sarcoidosis Protocol.

Moller DR, Koth LL, Maier LA, Morris A, Drake W, Rossman M, Leader JK, Collman RG, Hamzeh N, Sweiss NJ, Zhang Y, O'Neal S, Senior RM, Becich M, Hochheiser HS, Kaminski N, Wisniewski SR, Gibson KF; GRADS Sarcoidosis Study Group.

Ann Am Thorac Soc. 2015 Oct;12(10):1561-71. doi: 10.1513/AnnalsATS.201503-172OT.

34.

Dualtropic CXCR6/CCR5 Simian Immunodeficiency Virus (SIV) Infection of Sooty Mangabey Primary Lymphocytes: Distinct Coreceptor Use in Natural versus Pathogenic Hosts of SIV.

Elliott ST, Wetzel KS, Francella N, Bryan S, Romero DC, Riddick NE, Shaheen F, Vanderford T, Derdeyn CA, Silvestri G, Paiardini M, Collman RG.

J Virol. 2015 Sep;89(18):9252-61. doi: 10.1128/JVI.01236-15. Epub 2015 Jun 24.

35.

Characterization and Implementation of a Diverse Simian Immunodeficiency Virus SIVsm Envelope Panel in the Assessment of Neutralizing Antibody Breadth Elicited in Rhesus Macaques by Multimodal Vaccines Expressing the SIVmac239 Envelope.

Kilgore KM, Murphy MK, Burton SL, Wetzel KS, Smith SA, Xiao P, Reddy S, Francella N, Sodora DL, Silvestri G, Cole KS, Villinger F, Robinson JE, Pulendran B, Hunter E, Collman RG, Amara RR, Derdeyn CA.

J Virol. 2015 Aug;89(16):8130-51. doi: 10.1128/JVI.01221-14. Epub 2015 May 27.

36.

Human caspase-4 mediates noncanonical inflammasome activation against gram-negative bacterial pathogens.

Casson CN, Yu J, Reyes VM, Taschuk FO, Yadav A, Copenhaver AM, Nguyen HT, Collman RG, Shin S.

Proc Natl Acad Sci U S A. 2015 May 26;112(21):6688-93. doi: 10.1073/pnas.1421699112. Epub 2015 May 11.

37.

Erratum: Longer hospital stay is associated with high rates of tuberculosis-related morbidity and mortality within 12 months after discharge in a referral hospital in Sub-Saharan Africa.

Zetola NM, Macesic N, Shin SS, Peloso A, Ncube R, Klausner JD, Modongo C, Collman RG.

BMC Infect Dis. 2015 May 10;15:211. doi: 10.1186/s12879-015-0942-8. No abstract available.

38.

Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA.

Kelly BJ, Gross R, Bittinger K, Sherrill-Mix S, Lewis JD, Collman RG, Bushman FD, Li H.

Bioinformatics. 2015 Aug 1;31(15):2461-8. doi: 10.1093/bioinformatics/btv183. Epub 2015 Mar 29.

39.

Persistent high mortality in advanced HIV/TB despite appropriate antiretroviral and antitubercular therapy: an emerging challenge.

Bisson GP, Zetola N, Collman RG.

Curr HIV/AIDS Rep. 2015 Mar;12(1):107-16. doi: 10.1007/s11904-015-0256-x. Review.

40.

Viral metagenomics reveal blooms of anelloviruses in the respiratory tract of lung transplant recipients.

Young JC, Chehoud C, Bittinger K, Bailey A, Diamond JM, Cantu E, Haas AR, Abbas A, Frye L, Christie JD, Bushman FD, Collman RG.

Am J Transplant. 2015 Jan;15(1):200-9. doi: 10.1111/ajt.13031. Epub 2014 Nov 17.

41.

CD4 depletion in SIV-infected macaques results in macrophage and microglia infection with rapid turnover of infected cells.

Micci L, Alvarez X, Iriele RI, Ortiz AM, Ryan ES, McGary CS, Deleage C, McAtee BB, He T, Apetrei C, Easley K, Pahwa S, Collman RG, Derdeyn CA, Davenport MP, Estes JD, Silvestri G, Lackner AA, Paiardini M.

PLoS Pathog. 2014 Oct 30;10(10):e1004467. doi: 10.1371/journal.ppat.1004467. eCollection 2014 Oct.

42.

Improved characterization of medically relevant fungi in the human respiratory tract using next-generation sequencing.

Bittinger K, Charlson ES, Loy E, Shirley DJ, Haas AR, Laughlin A, Yi Y, Wu GD, Lewis JD, Frank I, Cantu E, Diamond JM, Christie JD, Collman RG, Bushman FD.

Genome Biol. 2014;15(10):487.

43.

The lung microbiome in idiopathic pulmonary fibrosis. What does it mean and what should we do about it?

Morris A, Gibson K, Collman RG.

Am J Respir Crit Care Med. 2014 Oct 15;190(8):850-2. doi: 10.1164/rccm.201409-1626ED. No abstract available.

PMID:
25317462
45.

Mixed Mycobacterium tuberculosis complex infections and false-negative results for rifampin resistance by GeneXpert MTB/RIF are associated with poor clinical outcomes.

Zetola NM, Shin SS, Tumedi KA, Moeti K, Ncube R, Nicol M, Collman RG, Klausner JD, Modongo C.

J Clin Microbiol. 2014 Jul;52(7):2422-9. doi: 10.1128/JCM.02489-13. Epub 2014 Apr 30.

46.

Divergent CD4+ T memory stem cell dynamics in pathogenic and nonpathogenic simian immunodeficiency virus infections.

Cartwright EK, McGary CS, Cervasi B, Micci L, Lawson B, Elliott ST, Collman RG, Bosinger SE, Paiardini M, Vanderford TH, Chahroudi A, Silvestri G.

J Immunol. 2014 May 15;192(10):4666-73. doi: 10.4049/jimmunol.1303193. Epub 2014 Apr 11.

47.

Target cell availability, rather than breast milk factors, dictates mother-to-infant transmission of SIV in sooty mangabeys and rhesus macaques.

Chahroudi A, Cartwright E, Lee ST, Mavigner M, Carnathan DG, Lawson B, Carnathan PM, Hashempoor T, Murphy MK, Meeker T, Ehnert S, Souder C, Else JG, Cohen J, Collman RG, Vanderford TH, Permar SR, Derdeyn CA, Villinger F, Silvestri G.

PLoS Pathog. 2014 Mar 6;10(3):e1003958. doi: 10.1371/journal.ppat.1003958. eCollection 2014 Mar.

48.

Gene editing of CCR5 in autologous CD4 T cells of persons infected with HIV.

Tebas P, Stein D, Tang WW, Frank I, Wang SQ, Lee G, Spratt SK, Surosky RT, Giedlin MA, Nichol G, Holmes MC, Gregory PD, Ando DG, Kalos M, Collman RG, Binder-Scholl G, Plesa G, Hwang WT, Levine BL, June CH.

N Engl J Med. 2014 Mar 6;370(10):901-10. doi: 10.1056/NEJMoa1300662.

49.

Clinical outcomes among persons with pulmonary tuberculosis caused by Mycobacterium tuberculosis isolates with phenotypic heterogeneity in results of drug-susceptibility tests.

Zetola NM, Modongo C, Moonan PK, Ncube R, Matlhagela K, Sepako E, Collman RG, Bisson GP.

J Infect Dis. 2014 Jun 1;209(11):1754-63. doi: 10.1093/infdis/jiu040. Epub 2014 Jan 16.

50.

Examining the relationship between alcohol use and high-risk sex practices in a population of women with high HIV incidence despite high levels of HIV-related knowledge.

Zetola NM, Modongo C, Olabiyi B, Ramogola-Masire D, Collman RG, Chao LW.

Sex Transm Infect. 2014 May;90(3):216-22. doi: 10.1136/sextrans-2013-051244. Epub 2014 Jan 15.

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