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DNA Damage and Perturbed Topoisomerase IIα as a Target of 1,4-Benzoquinone Toxicity in Murine Fetal Liver Cells.

Holmes TH, Winn LM.

Toxicol Sci. 2019 Jul 24. pii: kfz158. doi: 10.1093/toxsci/kfz158. [Epub ahead of print]


Penalized Supervised Star Plots: Example Application in Influenza-Specific CD4+ T Cells.

Holmes TH, Subrahmanyam PB, Wang W, Maecker HT.

Viral Immunol. 2019 Mar;32(2):102-109. doi: 10.1089/vim.2018.0046. Epub 2019 Jan 30. Erratum in: Viral Immunol. 2019 May;32(4):195.


Diminished B-Cell Response After Repeat Influenza Vaccination.

Sanyal M, Holmes TH, Maecker HT, Albrecht RA, Dekker CL, He XS, Greenberg HB.

J Infect Dis. 2019 Apr 19;219(10):1586-1595. doi: 10.1093/infdis/jiy685. Erratum in: J Infect Dis. 2019 Apr 19;219(10):1683.


Differences in multiple immune parameters between Indian and U.S. infants.

Rathore DK, Holmes TH, Nadeau KC, Mittal P, Batra A, Rosenberg-Hasson Y, Sopory S, Gupta R, Chellani HK, Aggarwal KC, Bal V, Natchu UCM, Bhatnagar S, Tavassoli M, Lyell DJ, Rath S, Wadhwa N, Maecker HT.

PLoS One. 2018 Nov 16;13(11):e0207297. doi: 10.1371/journal.pone.0207297. eCollection 2018. Erratum in: PLoS One. 2019 Mar 28;14(3):e0214749.


Genetic Characterization of Toxoplasma gondii DNA Samples Isolated From Humans Living in North America: An Unexpected High Prevalence of Atypical Genotypes.

Pomares C, Devillard S, Holmes TH, Olariu TR, Press CJ, Ramirez R, Talucod J, Estran R, Su C, Dubey JP, Ajzenberg D, Montoya JG.

J Infect Dis. 2018 Oct 20;218(11):1783-1791. doi: 10.1093/infdis/jiy375.


Corrigendum: Assessing National Biodiversity Trends for Rocky and Coral Reefs through the Integration of Citizen Science and Scientific Monitoring Programs.

Stuart-Smith RD, Edgar GJ, Barrett NS, Bates AE, Baker SC, Bax NJ, Becerro MA, Berkhout J, Blanchard JL, Brock DJ, Clark GF, Cooper AT, Davis TR, Day PB, Duffy JE, Holmes TH, Howe SA, Jordan A, Kininmonth S, Knott NA, Lefcheck JS, Ling SD, Parr A, Strain E, Sweatman H, Thomson R.

Bioscience. 2017 Aug 1;67(8):774. doi: 10.1093/biosci/bix070. Epub 2017 Jul 13.


Climatic forcing and larval dispersal capabilities shape the replenishment of fishes and their habitat-forming biota on a tropical coral reef.

Wilson SK, Depcyznski M, Fisher R, Holmes TH, Noble MM, Radford BT, Rule M, Shedrawi G, Tinkler P, Fulton CJ.

Ecol Evol. 2018 Jan 15;8(3):1918-1928. doi: 10.1002/ece3.3779. eCollection 2018 Feb.


Adjustment for Variable Adherence Under Hierarchical Structure: Instrumental Variable Modeling Through Compound Residual Inclusion.

Holmes TH, Zulman DM, Kushida CA.

Med Care. 2017 Dec;55(12):e120-e130. doi: 10.1097/MLR.0000000000000464. Epub 2016 Jan 13.


Canine companionship is associated with modification of attentional bias in posttraumatic stress disorder.

Woodward SH, Jamison AL, Gala S, Holmes TH.

PLoS One. 2017 Oct 11;12(10):e0179912. doi: 10.1371/journal.pone.0179912. eCollection 2017.


Cytokine signature associated with disease severity in chronic fatigue syndrome patients.

Montoya JG, Holmes TH, Anderson JN, Maecker HT, Rosenberg-Hasson Y, Valencia IJ, Chu L, Younger JW, Tato CM, Davis MM.

Proc Natl Acad Sci U S A. 2017 Aug 22;114(34):E7150-E7158. doi: 10.1073/pnas.1710519114. Epub 2017 Jul 31.


Assessing National Biodiversity Trends for Rocky and Coral Reefs through the Integration of Citizen Science and Scientific Monitoring Programs.

Stuart-Smith RD, Edgar GJ, Barrett NS, Bates AE, Baker SC, Bax NJ, Becerro MA, Berkhout J, Blanchard JL, Brock DJ, Clark GF, Cooper AT, Davis TR, Day PB, Duffy JE, Holmes TH, Howe SA, Jordan A, Kininmonth S, Knott NA, Lefcheck JS, Ling SD, Parr A, Strain E, Sweatman H, Thomson R.

Bioscience. 2017 Feb 1;67(2):134-146. doi: 10.1093/biosci/biw180. Erratum in: Bioscience. 2017 Aug 1;67(8):774.


Human Disruption of Coral Reef Trophic Structure.

Graham NA, McClanahan TR, MacNeil MA, Wilson SK, Cinner JE, Huchery C, Holmes TH.

Curr Biol. 2017 Jan 23;27(2):231-236. doi: 10.1016/j.cub.2016.10.062. Epub 2017 Jan 12.


Effect of an Intensive Outpatient Program to Augment Primary Care for High-Need Veterans Affairs Patients: A Randomized Clinical Trial.

Zulman DM, Pal Chee C, Ezeji-Okoye SC, Shaw JG, Holmes TH, Kahn JS, Asch SM.

JAMA Intern Med. 2017 Feb 1;177(2):166-175. doi: 10.1001/jamainternmed.2016.8021.


Linear-rank testing of a non-binary, responder-analysis, efficacy score to evaluate pharmacotherapies for substance use disorders.

Holmes TH, Li SH, McCann DJ.

Stat Methods Med Res. 2018 Jul;27(7):2154-2167. doi: 10.1177/0962280216677317. Epub 2016 Nov 25. Erratum in: Stat Methods Med Res. 2019 Jul;28(7):2243.


Cytokine profiles in patients with toxoplasmic lymphadenitis in the setting of pregnancy.

Pomares C, Holmes TH, Estran R, Press CJ, Ramirez R, Talucod J, Maecker H, Rosenberg-Hasson Y, Montoya JG.

Cytokine. 2017 Feb;90:14-20. doi: 10.1016/j.cyto.2016.09.021. Epub 2016 Oct 13.


Radiation Injury, Burns and Illness: A Review of Best Practices. Your approach should include identifying sources, determining exposure and managing resources.

Kearns RD, Sugarman S, Cairns CB, Holmes Th JH, Cairns BA, Rich PB.

EMS World. 2016 Oct;45(10):52-59. Review. No abstract available.


Influence of nursery microhabitats on the future abundance of a coral reef fish.

Wilson SK, Depczynski M, Fulton CJ, Holmes TH, Radford BT, Tinkler P.

Proc Biol Sci. 2016 Aug 17;283(1836). pii: 20160903. doi: 10.1098/rspb.2016.0903.


Climate-driven regime shift of a temperate marine ecosystem.

Wernberg T, Bennett S, Babcock RC, de Bettignies T, Cure K, Depczynski M, Dufois F, Fromont J, Fulton CJ, Hovey RK, Harvey ES, Holmes TH, Kendrick GA, Radford B, Santana-Garcon J, Saunders BJ, Smale DA, Thomsen MS, Tuckett CA, Tuya F, Vanderklift MA, Wilson S.

Science. 2016 Jul 8;353(6295):169-72. doi: 10.1126/science.aad8745.


Longitudinal Kinetics of Cytomegalovirus-Specific T-Cell Immunity and Viral Replication in Infants With Congenital Cytomegalovirus Infection.

Chen SF, Holmes TH, Slifer T, Ramachandran V, Mackey S, Hebson C, Arvin AM, Lewis DB, Dekker CL.

J Pediatric Infect Dis Soc. 2016 Mar;5(1):14-20. doi: 10.1093/jpids/piu089. Epub 2014 Sep 11.


Habitat Selectivity and Reliance on Live Corals for Indo-Pacific Hawkfishes (Family: Cirrhitidae).

Coker DJ, Hoey AS, Wilson SK, Depczynski M, Graham NA, Hobbs JP, Holmes TH, Pratchett MS.

PLoS One. 2015 Nov 3;10(11):e0138136. doi: 10.1371/journal.pone.0138136. eCollection 2015.


Dopamine D3 Receptor Antagonist (GSK598809) Potentiates the Hypertensive Effects of Cocaine in Conscious, Freely-Moving Dogs.

Appel NM, Li SH, Holmes TH, Acri JB.

J Pharmacol Exp Ther. 2015 Sep;354(3):484-92. doi: 10.1124/jpet.115.224121. Epub 2015 Jul 15.


Multimorbidity and healthcare utilisation among high-cost patients in the US Veterans Affairs Health Care System.

Zulman DM, Pal Chee C, Wagner TH, Yoon J, Cohen DM, Holmes TH, Ritchie C, Asch SM.

BMJ Open. 2015 Apr 16;5(4):e007771. doi: 10.1136/bmjopen-2015-007771.


Bupropion for the treatment of methamphetamine dependence in non-daily users: a randomized, double-blind, placebo-controlled trial.

Anderson AL, Li SH, Markova D, Holmes TH, Chiang N, Kahn R, Campbell J, Dickerson DL, Galloway GP, Haning W, Roache JD, Stock C, Elkashef AM.

Drug Alcohol Depend. 2015 May 1;150:170-4. doi: 10.1016/j.drugalcdep.2015.01.036. Epub 2015 Feb 7.


SMART DOCS: a new patient-centered outcomes and coordinated-care management approach for the future practice of sleep medicine.

Kushida CA, Nichols DA, Holmes TH, Miller R, Griffin K, Cardell CY, Hyde PR, Cohen E, Manber R, Walsh JK.

Sleep. 2015 Feb 1;38(2):315-26. doi: 10.5665/sleep.4422.


Abnormalities of lipoprotein concentrations in obstructive sleep apnea are related to insulin resistance.

Liu A, Cardell J, Ariel D, Lamendola C, Abbasi F, Kim SH, Holmes TH, Tomasso V, Mojaddidi H, Grove K, Kushida CA, Reaven GM.

Sleep. 2015 May 1;38(5):793-9. doi: 10.5665/sleep.4678.


Mental illness and intensification of diabetes medications: an observational cohort study.

Frayne SM, Holmes TH, Berg E, Goldstein MK, Berlowitz DR, Miller DR, Pogach LM, Laungani KJ, Lee TT, Moos R.

BMC Health Serv Res. 2014 Oct 22;14:458. doi: 10.1186/1472-6963-14-458.


Distinct patterns of B-cell activation and priming by natural influenza virus infection versus inactivated influenza vaccination.

He XS, Holmes TH, Sanyal M, Albrecht RA, García-Sastre A, Dekker CL, Davis MM, Greenberg HB.

J Infect Dis. 2015 Apr 1;211(7):1051-9. doi: 10.1093/infdis/jiu580. Epub 2014 Oct 21.


Association between success rate and citation count of studies of radiofrequency catheter ablation for atrial fibrillation: possible evidence of citation bias.

Perino AC, Hoang DD, Holmes TH, Santangeli P, Heidenreich PA, Perez MV, Wang PJ, Turakhia MP.

Circ Cardiovasc Qual Outcomes. 2014 Sep;7(5):687-92. doi: 10.1161/CIRCOUTCOMES.114.000912. Epub 2014 Sep 9.


Bayesian immunological model development from the literature: example investigation of recent thymic emigrants.

Holmes TH, Lewis DB.

J Immunol Methods. 2014 Dec 1;414:32-50. doi: 10.1016/j.jim.2014.08.001. Epub 2014 Aug 29.


Increased mortality associated with digoxin in contemporary patients with atrial fibrillation: findings from the TREAT-AF study.

Turakhia MP, Santangeli P, Winkelmayer WC, Xu X, Ullal AJ, Than CT, Schmitt S, Holmes TH, Frayne SM, Phibbs CS, Yang F, Hoang DD, Ho PM, Heidenreich PA.

J Am Coll Cardiol. 2014 Aug 19;64(7):660-8. doi: 10.1016/j.jacc.2014.03.060.


Distinct cross-reactive B-cell responses to live attenuated and inactivated influenza vaccines.

Sasaki S, Holmes TH, Albrecht RA, García-Sastre A, Dekker CL, He XS, Greenberg HB.

J Infect Dis. 2014 Sep 15;210(6):865-74. doi: 10.1093/infdis/jiu190. Epub 2014 Mar 27.


Immune profiling of pregnant Toxoplasma-infected US and Colombia patients reveals surprising impacts of infection on peripheral blood cytokines.

Pernas L, Ramirez R, Holmes TH, Montoya JG, Boothroyd JC.

J Infect Dis. 2014 Sep 15;210(6):923-31. doi: 10.1093/infdis/jiu189. Epub 2014 Mar 23.


Quantitative diet analysis of four mesopredators from a coral reef.

Ashworth EC, Depczynski M, Holmes TH, Wilson SK.

J Fish Biol. 2014 Apr;84(4):1031-45. doi: 10.1111/jfb.12343. Epub 2014 Mar 18.


Do benzodiazepines reduce the effectiveness of exposure therapy for posttraumatic stress disorder?

Rosen CS, Greenbaum MA, Schnurr PP, Holmes TH, Brennan PL, Friedman MJ.

J Clin Psychiatry. 2013 Dec;74(12):1241-8. doi: 10.4088/JCP.13m08592.


Chest CT in children: anesthesia and atelectasis.

Newman B, Krane EJ, Gawande R, Holmes TH, Robinson TE.

Pediatr Radiol. 2014 Feb;44(2):164-72. doi: 10.1007/s00247-013-2800-4. Epub 2013 Nov 8.


Unprecedented mass bleaching and loss of coral across 12° of latitude in Western Australia in 2010-11.

Moore JA, Bellchambers LM, Depczynski MR, Evans RD, Evans SN, Field SN, Friedman KJ, Gilmour JP, Holmes TH, Middlebrook R, Radford BT, Ridgway T, Shedrawi G, Taylor H, Thomson DP, Wilson SK.

PLoS One. 2012;7(12):e51807. doi: 10.1371/journal.pone.0051807. Epub 2012 Dec 17.


Critical research needs for managing coral reef marine protected areas: perspectives of academics and managers.

Cvitanovic C, Wilson SK, Fulton CJ, Almany GR, Anderson P, Babcock RC, Ban NC, Beeden RJ, Beger M, Cinner J, Dobbs K, Evans LS, Farnham A, Friedman KJ, Gale K, Gladstone W, Grafton Q, Graham NA, Gudge S, Harrison PL, Holmes TH, Johnstone N, Jones GP, Jordan A, Kendrick AJ, Klein CJ, Little LR, Malcolm HA, Morris D, Possingham HP, Prescott J, Pressey RL, Skilleter GA, Simpson C, Waples K, Wilson D, Williamson DH.

J Environ Manage. 2013 Jan 15;114:84-91. doi: 10.1016/j.jenvman.2012.10.051. Epub 2012 Dec 7.


Effects of continuous positive airway pressure on neurocognitive function in obstructive sleep apnea patients: The Apnea Positive Pressure Long-term Efficacy Study (APPLES).

Kushida CA, Nichols DA, Holmes TH, Quan SF, Walsh JK, Gottlieb DJ, Simon RD Jr, Guilleminault C, White DP, Goodwin JL, Schweitzer PK, Leary EB, Hyde PR, Hirshkowitz M, Green S, McEvoy LK, Chan C, Gevins A, Kay GG, Bloch DA, Crabtree T, Dement WC.

Sleep. 2012 Dec 1;35(12):1593-602. doi: 10.5665/sleep.2226. Erratum in: Sleep. 2016 Jul 1;39(7):1483.


Relative and combined effects of habitat and fishing on reef fish communities across a limited fishing gradient at Ningaloo.

Wilson SK, Babcock RC, Fisher R, Holmes TH, Moore JA, Thomson DP.

Mar Environ Res. 2012 Oct;81:1-11. doi: 10.1016/j.marenvres.2012.08.002. Epub 2012 Aug 11.


High-anxious individuals show increased chronic stress burden, decreased protective immunity, and increased cancer progression in a mouse model of squamous cell carcinoma.

Dhabhar FS, Saul AN, Holmes TH, Daugherty C, Neri E, Tillie JM, Kusewitt D, Oberyszyn TM.

PLoS One. 2012;7(4):e33069. doi: 10.1371/journal.pone.0033069. Epub 2012 Apr 25.


A method for estimating normative distributions for study-specific populations of clinical trials.

Holmes TH, Nichols DA, Thomander D, Kushida CA.

Contemp Clin Trials. 2012 Mar;33(2):445-9. doi: 10.1016/j.cct.2011.11.014. Epub 2011 Nov 25.


Limited efficacy of inactivated influenza vaccine in elderly individuals is associated with decreased production of vaccine-specific antibodies.

Sasaki S, Sullivan M, Narvaez CF, Holmes TH, Furman D, Zheng NY, Nishtala M, Wrammert J, Smith K, James JA, Dekker CL, Davis MM, Wilson PC, Greenberg HB, He XS.

J Clin Invest. 2011 Aug;121(8):3109-19. doi: 10.1172/JCI57834. Epub 2011 Jul 25.


Advantages of Joint Modeling of Component HIV Risk Behaviors and Non-Response: Application to Randomized Trials in Cocaine-Dependent and Methamphetamine-Dependent Populations.

Holmes TH, Anderson AL, Li SH, Elkashef AM.

Front Psychiatry. 2011 Jul 7;2:41. doi: 10.3389/fpsyt.2011.00041. eCollection 2011.


Anemia in older persons: etiology and evaluation.

Price EA, Mehra R, Holmes TH, Schrier SL.

Blood Cells Mol Dis. 2011 Feb 15;46(2):159-65. doi: 10.1016/j.bcmd.2010.11.004. Epub 2011 Jan 3.


Habitat associations of juvenile fish at Ningaloo Reef, Western Australia: the importance of coral and algae.

Wilson SK, Depczynski M, Fisher R, Holmes TH, O'Leary RA, Tinkler P.

PLoS One. 2010 Dec 7;5(12):e15185. doi: 10.1371/journal.pone.0015185.


Mental illness-related disparities in length of stay: algorithm choice influences results.

Frayne SM, Berg E, Holmes TH, Laungani K, Berlowitz DR, Miller DR, Pogach L, Jackson VW, Moos R.

J Rehabil Res Dev. 2010;47(8):709-18.


Military-related sexual trauma among Veterans Health Administration patients returning from Afghanistan and Iraq.

Kimerling R, Street AE, Pavao J, Smith MW, Cronkite RC, Holmes TH, Frayne SM.

Am J Public Health. 2010 Aug;100(8):1409-12. doi: 10.2105/AJPH.2009.171793. Epub 2010 Jun 17.

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