Addressing the analytic challenges of cross-sectional pediatric pneumonia etiology data

Clinical Infectious Diseases

Volumn 64, Issue , 2017, Pages S197-S204

  Hammitt, Laura L ^a,b   Feikin, Daniel R ^a,c   Scott, J Anthony G ^b,d   Zeger, Scott L ^a   Murdoch, David R ^e,f   O'Brien, Katherine L ^a   Knoll, Maria Deloria ^a  

^a JOHNS HOPKINS BLOOMBERG SCHOOL OF PUBLIC HEALTH   (United States)

^b KENYA MEDICAL RESEARCH INSTITUTE   (Kenya)

^c NATIONAL CENTER FOR IMMUNIZATION AND RESPIRATORY DISEASES   (United States)

^d LONDON SCHOOL OF HYGIENE AND TROPICAL MEDICINE   (United Kingdom)

^e UNIVERSITY OF OTAGO   (New Zealand)

^f CANTERBURY HEALTH LABORATORIES   (New Zealand)

Author keywords

Attributable fraction analysis; Case control analysis; Etiology; Latent class analysis; Pneumonia

Indexed keywords

ANALYTIC METHOD; ARTICLE; ASSAY; ATTRIBUTABLE FRACTION ANALYSIS; BLOOD CULTURE; DIAGNOSTIC TEST; HUMAN; LABORATORY TEST; LATENT CLASS ANALYSIS; MEASUREMENT ERROR; NUCLEIC ACID ANALYSIS; ODDS RATIO; PATHOGEN LOAD; PNEUMONIA; PRIORITY JOURNAL; SENSITIVITY AND SPECIFICITY; BACTERIAL PNEUMONIA; CASE CONTROL STUDY; CHILD; CROSS-SECTIONAL STUDY; FEMALE; LUNG; MALE; MICROBIOLOGY; MULTICENTER STUDY (TOPIC); RESPIRATORY TRACT EXAMINATION; SPECIMEN HANDLING; VIROLOGY; VIRUS PNEUMONIA;

BLOOD CULTURE; CASE-CONTROL STUDIES; CHILD; CROSS-SECTIONAL STUDIES; DIAGNOSTIC TECHNIQUES, RESPIRATORY SYSTEM; FEMALE; HUMANS; LUNG; MALE; MULTICENTER STUDIES AS TOPIC; PNEUMONIA; PNEUMONIA, BACTERIAL; PNEUMONIA, VIRAL; SENSITIVITY AND SPECIFICITY; SPECIMEN HANDLING;

EID: 85038124722     PISSN: 10584838     EISSN: 15376591     Source Type: Journal    
DOI: 10.1093/cid/cix147     Document Type: Article

References (28)

1. Feikin DR, Hammitt LL, Murdoch DR, O'Brien KL, Scott JAG. The enduring challenge of determining pneumonia etiology in children: considerations for future research priorities. Clin Infect Dis 2017; 64(suppl 3):S188-96.
2. Cutts FT, Zaman SM, Enwere G, et al.; Gambian Pneumococcal Vaccine Trial Group. Efficacy of nine-valent pneumococcal conjugate vaccine against pneumonia and invasive pneumococcal disease in The Gambia: randomised, double- blind, placebo-controlled trial. Lancet 2005; 365:1139-46.
3. O'Callaghan-Gordo C, Bassat Q, Morais L, et al. Etiology and epidemiology of viral pneumonia among hospitalized children in rural Mozambique: a malaria endemic area with high prevalence of human immunodeficiency virus. Pediatr Infect Dis J 2011; 30:39-44.
4. Kwofie TB, Anane YA, Nkrumah B, Annan A, Nguah SB, Owusu M. Respiratory viruses in children hospitalized for acute lower respiratory tract infection in Ghana. Virol J 2012; 9:78.
5. Mathisen M, Strand TA, Valentiner-Branth P, et al. Respiratory viruses in Nepalese children with and without pneumonia: a case-control study. Pediatr Infect Dis J 2010; 29:731-5.
6. Hammitt LL, Kazungu S, Morpeth SC, et al. A preliminary study of pneumonia etiology among hospitalized children in Kenya. Clin Infect Dis 2012; 54(suppl 2):S190-9.
7. Self WH, Williams DJ, Zhu Y, et al. Respiratory viral detection in children and adults: comparing asymptomatic controls and patients with community-acquired pneumonia. J Infect Dis 2016; 213:584-91.
8. Kelly MS, Smieja M, Luinstra K, et al. Association of respiratory viruses with outcomes of severe childhood pneumonia in Botswana. PLoS One 2015; 10:e0126593.
9. Rhedin S, Lindstrand A, Hjelmgren A, et al. Respiratory viruses associated with community-acquired pneumonia in children: matched case-control study. Thorax 2015; 70:847-53.
10. Turner C, Turner P, Carrara V, et al. High rates of pneumonia in children under two years of age in a South East Asian refugee population. PLoS One 2013; 8:e54026.
11. Dickson RP, Erb-Downward JR, Martinez FJ, Huffnagle GB. The microbiome and the respiratory tract. Annu Rev Physiol 2016; 78:481-504.
12. Deloria-Knoll M, Feikin DR, Scott JA, et al; Pneumonia Methods Working Group. Identification and selection of cases and controls in the pneumonia etiology research for child health project. Clin Infect Dis 2012; 54(suppl 2):S117-23.
13. Higdon MM, Hammitt LL, Deloria Knoll M, et al. Should controls with respiratory symptoms be excluded in case-control studies of pneumonia etiology? Reflections from the PERCH Study. Clin Infect Dis 2017; 64(suppl 3):S205-12.
14. Kotloff KL, Nataro JP, Blackwelder WC, et al. Burden and aetiology of diarrhoeal disease in infants and young children in developing countries (the Global Enteric Multicenter Study, GEMS): a prospective, case-control study. Lancet 2013; 382:209-22.
15. Singleton RJ, Bulkow LR, Miernyk K, et al. Viral respiratory infections in hospitalized and community control children in Alaska. J Med Virol 2010; 82:1282-90.
16. Bruzzi P, Green SB, Byar DP, Brinton LA, Schairer C. Estimating the population attributable risk for multiple risk factors using case-control data. Am J Epidemiol 1985; 122:904-14.
17. Blackwelder WC, Biswas K, Wu Y, et al. Statistical methods in the Global Enteric Multicenter Study (GEMS). Clin Infect Dis 2012; 55(suppl 4):S246-53.
18. Albrich WC, Madhi SA, Adrian PV, et al. Use of a rapid test of pneumococcal colonization density to diagnose pneumococcal pneumonia. Clin Infect Dis 2012; 54:601-9.
19. Vu HT, Yoshida LM, Suzuki M, et al. Association between nasopharyngeal load of Streptococcus pneumoniae, viral coinfection, and radiologically confirmed pneumonia in Vietnamese children. Pediatr Infect Dis J 2011; 30:11-8.
20. Fuller JA, Njenga MK, Bigogo G, et al. Association of the CT values of real-time PCR of viral upper respiratory tract infection with clinical severity, Kenya. J Med Virol 2013; 85:924-32.
21. Levine OS, Liu G, Garman RL, Dowell SF, Yu S, Yang YH. Haemophilus influenzae type b and Streptococcus pneumoniae as causes of pneumonia among children in Beijing, China. Emerg Infect Dis 2000; 6:165-70.
22. Feikin DR, Fu W, Park DE, et al. Is higher viral load in the upper respiratory tract associated with severe pneumonia? Findings from the PERCH study. Clin Infect Dis 2017; 64(suppl 3):S337-46.
23. Park DE, Baggett HC, Howie SRC, et al. Colonization density of the upper respiratory tract as a predictor of pneumonia-Haemophilus influenzae, Moraxella catarrhalis, Staphylococcus aureus, and Pneumocystis jirovecii. Clin Infect Dis 2017; 64(suppl 3):S328-36.
24. Jokinen J, Scott JA. Estimating the proportion of pneumonia attributable to pneumococcus in Kenyan adults: latent class analysis. Epidemiology 2010; 21:719-25.
25. Butler JC, Bosshardt SC, Phelan M, et al. Classical and latent class analysis evaluation of sputum polymerase chain reaction and urine antigen testing for diagnosis of pneumococcal pneumonia in adults. J Infect Dis 2003; 187:1416-23.
26. Wu Z, Deloria-Knoll M, Hammitt LL, Zeger SL. Partially latent class models for case-control studies of childhood pneumonia aetiology. J R Stat Soc Ser C Appl Stat 2016; 65:97-114.
27. Deloria Knoll M, Fu W, Shi Q, et al. Bayesian estimation of pneumonia etiology: epidemiologic considerations and applications to pneumonia etiology research for child health study. Clin Infect Dis 2017; 64(suppl 3):S213-27.
28. Levine OS, O'Brien KL, Deloria-Knoll M, et al. The Pneumonia Etiology Research for Child Health project: a 21st century childhood pneumonia etiology study. Clin Infect Dis 2012; 54(suppl 2):S93-101.