Tyson H Holmes

Summary

Affiliation: Stanford University
Country: USA

Publications

  1. ncbi request reprint Linear-rank testing of a non-binary, responder-analysis, efficacy score to evaluate pharmacotherapies for substance use disorders
    Tyson H Holmes
    Human Immune Monitoring Center, Stanford University School of Medicine, Stanford, CA, USA
    Stat Methods Med Res . 2016
  2. pmc Human immunophenotyping via low-variance, low-bias, interpretive regression modeling of small, wide data sets: Application to aging and immune response to influenza vaccination
    Tyson H Holmes
    Stanford University Human Immune Monitoring Center, Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA Electronic address
    J Immunol Methods 437:1-12. 2016
  3. pmc Mental illness and intensification of diabetes medications: an observational cohort study
    Susan M Frayne
    Department of Veterans Affairs HSR and D Center for Innovation to Implementation Ci2i, VA Palo Alto Health Care System, 795 Willow Road 152 MPD, Menlo Park, CA 94025, USA
    BMC Health Serv Res 14:458. 2014
  4. pmc Bayesian immunological model development from the literature: example investigation of recent thymic emigrants
    Tyson H Holmes
    Stanford Center for Sleep Sciences and Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, 401 Quarry Road, Stanford, CA 94305 5718, USA Electronic address
    J Immunol Methods 414:32-50. 2014
  5. pmc Advantages of Joint Modeling of Component HIV Risk Behaviors and Non-Response: Application to Randomized Trials in Cocaine-Dependent and Methamphetamine-Dependent Populations
    Tyson H Holmes
    Division of Sleep Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine Stanford, CA, USA
    Front Psychiatry 2:41. 2011
  6. doi request reprint A method for estimating normative distributions for study-specific populations of clinical trials
    Tyson H Holmes
    Division of Sleep Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, 701A Welch Road A2226, Palo Alto, CA 94305 5718, USA
    Contemp Clin Trials 33:445-9. 2012
  7. ncbi request reprint Ten categories of statistical errors: a guide for research in endocrinology and metabolism
    Tyson H Holmes
    Stanford University School of Medicine, Department of Health Research and Policy, Division of Biostatistics, HRP Redwood Building, Rm T160C, Stanford CA 94305 5405, USA
    Am J Physiol Endocrinol Metab 286:E495-501. 2004
  8. doi request reprint Phenotypic changes in influenza-specific CD8+ T cells after immunization of children and adults with influenza vaccines
    Xiao Song He
    Departments of Medicine, Stanford University School of Medicine, Stanford
    J Infect Dis 197:803-11. 2008
  9. pmc Baseline levels of influenza-specific CD4 memory T-cells affect T-cell responses to influenza vaccines
    Xiao Song He
    Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America
    PLoS ONE 3:e2574. 2008
  10. ncbi request reprint Humoral and cellular immune responses in children given annual immunization with trivalent inactivated influenza vaccine
    Alenka M Zeman
    Department of Pediatrics, Stanford University School of Medicine, Stanford, CA 94305 5208, USA
    Pediatr Infect Dis J 26:107-15. 2007

Collaborators

Detail Information

Publications32

  1. ncbi request reprint Linear-rank testing of a non-binary, responder-analysis, efficacy score to evaluate pharmacotherapies for substance use disorders
    Tyson H Holmes
    Human Immune Monitoring Center, Stanford University School of Medicine, Stanford, CA, USA
    Stat Methods Med Res . 2016
    ..These linear-rank tests agreed across all trials in rejecting (or not) their null (equality of distributions) at ≤ 0.05...
  2. pmc Human immunophenotyping via low-variance, low-bias, interpretive regression modeling of small, wide data sets: Application to aging and immune response to influenza vaccination
    Tyson H Holmes
    Stanford University Human Immune Monitoring Center, Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA Electronic address
    J Immunol Methods 437:1-12. 2016
    ....
  3. pmc Mental illness and intensification of diabetes medications: an observational cohort study
    Susan M Frayne
    Department of Veterans Affairs HSR and D Center for Innovation to Implementation Ci2i, VA Palo Alto Health Care System, 795 Willow Road 152 MPD, Menlo Park, CA 94025, USA
    BMC Health Serv Res 14:458. 2014
    ....
  4. pmc Bayesian immunological model development from the literature: example investigation of recent thymic emigrants
    Tyson H Holmes
    Stanford Center for Sleep Sciences and Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, 401 Quarry Road, Stanford, CA 94305 5718, USA Electronic address
    J Immunol Methods 414:32-50. 2014
    ..Estimates from this model indicate that 21 years of age is plausible for the developmental timing of mean age of onset of decline in T-cell receptor excision circle content of peripheral T cells...
  5. pmc Advantages of Joint Modeling of Component HIV Risk Behaviors and Non-Response: Application to Randomized Trials in Cocaine-Dependent and Methamphetamine-Dependent Populations
    Tyson H Holmes
    Division of Sleep Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine Stanford, CA, USA
    Front Psychiatry 2:41. 2011
    ..No evidence for an effect of pharmacotherapies was observed, except to reduce missing assessments. Univariate-outcome modeling is not recommended for the HRBS...
  6. doi request reprint A method for estimating normative distributions for study-specific populations of clinical trials
    Tyson H Holmes
    Division of Sleep Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, 701A Welch Road A2226, Palo Alto, CA 94305 5718, USA
    Contemp Clin Trials 33:445-9. 2012
    ..The method is illustrated using data on a depression instrument (GRID Hamilton Rating Scale for Depression) and a neurocognitive instrument (CogScreen Pathfinder Number) from a multicenter clinical trial in sleep apnea patients...
  7. ncbi request reprint Ten categories of statistical errors: a guide for research in endocrinology and metabolism
    Tyson H Holmes
    Stanford University School of Medicine, Department of Health Research and Policy, Division of Biostatistics, HRP Redwood Building, Rm T160C, Stanford CA 94305 5405, USA
    Am J Physiol Endocrinol Metab 286:E495-501. 2004
    ..A review of recent issues of American Journal of Physiology: Endocrinology and Metabolism and of Endocrinology finds that very small sample sizes may be the most prevalent cause of statistical error in this literature...
  8. doi request reprint Phenotypic changes in influenza-specific CD8+ T cells after immunization of children and adults with influenza vaccines
    Xiao Song He
    Departments of Medicine, Stanford University School of Medicine, Stanford
    J Infect Dis 197:803-11. 2008
    ..These differences are potentially affected by the different routes of vaccination and pathways of antigen presentation for TIV and LAIV...
  9. pmc Baseline levels of influenza-specific CD4 memory T-cells affect T-cell responses to influenza vaccines
    Xiao Song He
    Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America
    PLoS ONE 3:e2574. 2008
    ..Factors affecting immune responses to influenza vaccines have not been studied systematically. We hypothesized that T-cell and antibody responses to the vaccines are functions of pre-existing host immunity against influenza antigens...
  10. ncbi request reprint Humoral and cellular immune responses in children given annual immunization with trivalent inactivated influenza vaccine
    Alenka M Zeman
    Department of Pediatrics, Stanford University School of Medicine, Stanford, CA 94305 5208, USA
    Pediatr Infect Dis J 26:107-15. 2007
    ..There have been no prior reports of the frequency of circulating influenza-specific, interferon gamma-producing memory CD4+ and CD8+ T-cells in healthy children who have received multiple influenza immunizations...
  11. pmc Influence of prior influenza vaccination on antibody and B-cell responses
    Sanae Sasaki
    Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America
    PLoS ONE 3:e2975. 2008
    ..In particular, prior year TIV vaccination is associated with sustained higher HAI titer one year later but lower antibody response to new LAIV or TIV vaccination, and a lower effector B-cell response to new TIV but not LAIV vaccination...
  12. pmc Effects of continuous positive airway pressure on neurocognitive function in obstructive sleep apnea patients: The Apnea Positive Pressure Long-term Efficacy Study (APPLES)
    Clete A Kushida
    Stanford University, Stanford, CA, USA
    Sleep 35:1593-602. 2012
    ..To determine the neurocognitive effects of continuous positive airway pressure (CPAP) therapy on patients with obstructive sleep apnea (OSA)...
  13. pmc Comparison of the influenza virus-specific effector and memory B-cell responses to immunization of children and adults with live attenuated or inactivated influenza virus vaccines
    Sanae Sasaki
    Department of Medicine, Stanford University School of Medicine, CA, USA
    J Virol 81:215-28. 2007
    ....
  14. pmc High-anxious individuals show increased chronic stress burden, decreased protective immunity, and increased cancer progression in a mouse model of squamous cell carcinoma
    Firdaus S Dhabhar
    Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, California, United States of America
    PLoS ONE 7:e33069. 2012
    ..Therefore, it may be beneficial to investigate the use of chemotherapy-compatible anxiolytic treatments immediately following cancer diagnosis, and during cancer treatment/survivorship...
  15. ncbi request reprint Persistent and selective deficiency of CD4+ T cell immunity to cytomegalovirus in immunocompetent young children
    Wenwei Tu
    Department of Pediatrics, Stanford University School of Medicine, Stanford, CA 94305, USA
    J Immunol 172:3260-7. 2004
    ..Thus, CD4(+) T cell-mediated immunity to CMV in humans is generated in an age-dependent manner, and may have a substantial role in controlling renal viral replication and urinary shedding...
  16. pmc Limited efficacy of inactivated influenza vaccine in elderly individuals is associated with decreased production of vaccine-specific antibodies
    Sanae Sasaki
    Department of Immunology and Microbiology, Stanford University School of Medicine, Stanford, California, USA
    J Clin Invest 121:3109-19. 2011
    ..They also suggest that exposure history affects the cross-reactivity of vaccination-induced antibodies...
  17. pmc T cell-dependent production of IFN-gamma by NK cells in response to influenza A virus
    Xiao Song He
    Department of Medicine, Stanford University of School of Medicine, Stanford, California, USA
    J Clin Invest 114:1812-9. 2004
    ..Taken together, these results suggest that at an early stage of recurrent viral infection, NK-mediated innate immunity to the virus is enhanced by preexisting virus-specific T cells...
  18. ncbi request reprint Analysis of the frequencies and of the memory T cell phenotypes of human CD8+ T cells specific for influenza A viruses
    Xiao Song He
    Stanford University School of Medicine, Stanford, California, USA
    J Infect Dis 187:1075-84. 2003
    ..The different patterns of CD27 expression in influenza virus- and cytomegalovirus-specific CD8+ T cells suggest that influenza virus-specific memory and effector CD8+ T cells can be differentiated by phenotypic analysis...
  19. ncbi request reprint Composite spirometric-computed tomography outcome measure in early cystic fibrosis lung disease
    Terry E Robinson
    Pediatric Pulmonary Division, Stanford University Medical Center, 701 Welch Road, Whelan Building 3328, Palo Alto, CA 94304 5786
    Am J Respir Crit Care Med 168:588-93. 2003
    ....
  20. ncbi request reprint Mental illness-related disparities in length of stay: algorithm choice influences results
    Susan M Frayne
    Center for Health Care Evaluation, Department of Veterans Affairs VA Palo Alto Health Care System, 795 Willow Road 152 MPD, Palo Alto, CA 94025, USA
    J Rehabil Res Dev 47:709-18. 2010
    ..001), for the most refined algorithm. Researchers can improve the quality of data applied to VHA systems redesign by applying methodological considerations raised by this study to inform LOS algorithm choice...
  21. pmc Simple counts of ADL dependencies do not adequately reflect older adults' preferences toward states of functional impairment
    Tamara Sims
    Center for Primary Care and Outcomes Research, 117 Encina Commons, Stanford University, Stanford, CA 94305 6019, United States
    J Clin Epidemiol 61:1261-70. 2008
    ..To test this assumption, we analyzed standard gamble (SG) utilities of single and combination ADL dependencies among older adults...
  22. ncbi request reprint Variability and gender differences in memory T cell immunity to varicella-zoster virus in healthy adults
    Nicola P Klein
    Division of Pediatric Infectious Diseases, Stanford University School of Medicine, Stanford, CA 94305 520, USA
    Vaccine 24:5913-8. 2006
    ..Taken together, results suggest that further studies regarding immunization of younger adults and females with the modified, high-potency live attenuated VZV vaccine may be warranted...
  23. ncbi request reprint Candidate early predictors for progression to joint damage in systemic juvenile idiopathic arthritis
    Christy Sandborg
    Department of Pediatrics, Stanford University School of Medicine, University Medical Center, 300 Pasteur Drive, Stanford, CA 94305, USA
    J Rheumatol 33:2322-9. 2006
    ..To assess if joint damage at 2 years after diagnosis in patients with systemic juvenile idiopathic arthritis (SJIA) can be predicted by clinical or laboratory features assessed up to 3 or 6 months after diagnosis...
  24. pmc Short-term stress enhances cellular immunity and increases early resistance to squamous cell carcinoma
    Firdaus S Dhabhar
    Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA 94305 5135, United States
    Brain Behav Immun 24:127-37. 2010
    ....
  25. ncbi request reprint T-cell immunity to subclinical cytomegalovirus infection reduces cardiac allograft disease
    Wenwei Tu
    Department of Pediatrics, Stanford University School of Medicine, Stanford, CA 94305 5164, USA
    Circulation 114:1608-15. 2006
    ..How subclinical viral replication influences cardiac allograft disease remains poorly understood, as does the importance of T-cell immunity in controlling such replication...
  26. ncbi request reprint Phenotypic and functional status of intrahepatic T cells in chronic hepatitis C
    Jinhui Wang
    Department of Medicine, Stanford University School of Medicine, Stanford, CA, USA
    J Infect Dis 194:1068-77. 2006
    ..The distinct characteristics of intrahepatic T cells suggest that they play an important role in the immunopathogenesis of chronic hepatitis C...
  27. ncbi request reprint Antiviral CD8 T cells in the control of primary human cytomegalovirus infection in early childhood
    Sharon F Chen
    Department of Pediatrics, Stanford University School of Medicine, Stanford, California 94305, USA
    J Infect Dis 189:1619-27. 2004
    ..Because these healthy children continue to have local CMV replication, we suggest that CD8 T cells may function primarily to prevent symptomatic, disseminated disease...
  28. pmc Cellular immune responses in children and adults receiving inactivated or live attenuated influenza vaccines
    Xiao Song He
    Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
    J Virol 80:11756-66. 2006
    ..In conclusion, our findings identify age, type of vaccine, and prevaccination levels of immune reactivity to influenza A virus as factors significantly associated with the magnitude of cellular immune responses to influenza vaccines...
  29. pmc Adjustment for Variable Adherence Under Hierarchical Structure: Instrumental Variable Modeling Through Compound Residual Inclusion
    Tyson H Holmes
    Stanford University Human Immune Monitoring Center, Institute for Immunity Transplantation and Infection, Stanford University School of Medicine, Stanford Center for Innovation to Implementation, VA Palo Alto Health Care System, Menlo Park Department of Medicine, Division of General Medical Disciplines Stanford Sleep Medicine Center and Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, CA
    Med Care . 2016
    ..Variable adherence to assigned conditions is common in randomized clinical trials...
  30. pmc Dopamine D3 Receptor Antagonist (GSK598809) Potentiates the Hypertensive Effects of Cocaine in Conscious, Freely-Moving Dogs
    Nathan M Appel
    Division of Pharmacotherapies and Medical Consequences of Drug Abuse, National Institute on Drug Abuse, National Institutes of Health, Bethesda, Maryland N M A, S H L, J B A and Stanford Center for Sleep Sciences and Medicine, Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, California T H H
    J Pharmacol Exp Ther 354:484-92. 2015
    ..This finding suggests that GSK598809 in particular, and perhaps dopamine D3 receptor antagonists as a class, may produce unacceptable cardiovascular risks as medications to treat cocaine use disorder. ..
  31. ncbi request reprint The Apnea Positive Pressure Long-term Efficacy Study (APPLES): rationale, design, methods, and procedures
    Clete A Kushida
    Stanford Universit y, Stanfbrd, CA, USA
    J Clin Sleep Med 2:288-300. 2006
    ..To assess the size, time course, and durability of the effects of long-term continuous positive airway pressure (CPAP) therapy on neurocognitive function, mood, sleepiness, and quality of life in patients with obstructive sleep apnea...
  32. ncbi request reprint Expression of chemokine receptors on intrahepatic and peripheral lymphocytes in chronic hepatitis C infection: its relationship to liver inflammation
    Jinhui Wang
    Stanford University School of Medicine, California, USA
    J Infect Dis 190:989-97. 2004
    ..Intrahepatic lymphocytes are believed to be directly involved in the immunopathogenesis of chronic liver diseases. Little is known about the trafficking of lymphocytes into the liver and their role in chronic hepatitis C infection...