9
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Wilson MR, O'Donovan BD, Gelfand JM, Sample HA, Chow FC, Betjemann JP, Shah MP, Richie MB, Gorman MP, Hajj-Ali RA, Calabrese LH, Zorn KC, Chow ED, Greenlee JE, Blum JH, Green G, Khan LM, Banerji D, Langelier C, Bryson-Cahn C, Harrington W, Lingappa JR, Shanbhag NM, Green AJ, Brew BJ, Soldatos A, Strnad L, Doernberg SB, Jay CA, Douglas V, Josephson SA, DeRisi JL. Chronic Meningitis Investigated via Metagenomic Next-Generation Sequencing. JAMA Neurol 2019; 75:947-955. [PMID: 29710329 DOI: 10.1001/jamaneurol.2018.0463] [Citation(s) in RCA: 187] [Impact Index Per Article: 37.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Importance Identifying infectious causes of subacute or chronic meningitis can be challenging. Enhanced, unbiased diagnostic approaches are needed. Objective To present a case series of patients with diagnostically challenging subacute or chronic meningitis using metagenomic next-generation sequencing (mNGS) of cerebrospinal fluid (CSF) supported by a statistical framework generated from mNGS of control samples from the environment and from patients who were noninfectious. Design, Setting, and Participants In this case series, mNGS data obtained from the CSF of 94 patients with noninfectious neuroinflammatory disorders and from 24 water and reagent control samples were used to develop and implement a weighted scoring metric based on z scores at the species and genus levels for both nucleotide and protein alignments to prioritize and rank the mNGS results. Total RNA was extracted for mNGS from the CSF of 7 participants with subacute or chronic meningitis who were recruited between September 2013 and March 2017 as part of a multicenter study of mNGS pathogen discovery among patients with suspected neuroinflammatory conditions. The neurologic infections identified by mNGS in these 7 participants represented a diverse array of pathogens. The patients were referred from the University of California, San Francisco Medical Center (n = 2), Zuckerberg San Francisco General Hospital and Trauma Center (n = 2), Cleveland Clinic (n = 1), University of Washington (n = 1), and Kaiser Permanente (n = 1). A weighted z score was used to filter out environmental contaminants and facilitate efficient data triage and analysis. Main Outcomes and Measures Pathogens identified by mNGS and the ability of a statistical model to prioritize, rank, and simplify mNGS results. Results The 7 participants ranged in age from 10 to 55 years, and 3 (43%) were female. A parasitic worm (Taenia solium, in 2 participants), a virus (HIV-1), and 4 fungi (Cryptococcus neoformans, Aspergillus oryzae, Histoplasma capsulatum, and Candida dubliniensis) were identified among the 7 participants by using mNGS. Evaluating mNGS data with a weighted z score-based scoring algorithm reduced the reported microbial taxa by a mean of 87% (range, 41%-99%) when taxa with a combined score of 0 or less were removed, effectively separating bona fide pathogen sequences from spurious environmental sequences so that, in each case, the causative pathogen was found within the top 2 scoring microbes identified using the algorithm. Conclusions and Relevance Diverse microbial pathogens were identified by mNGS in the CSF of patients with diagnostically challenging subacute or chronic meningitis, including a case of subarachnoid neurocysticercosis that defied diagnosis for 1 year, the first reported case of CNS vasculitis caused by Aspergillus oryzae, and the fourth reported case of C dubliniensis meningitis. Prioritizing metagenomic data with a scoring algorithm greatly clarified data interpretation and highlighted the problem of attributing biological significance to organisms present in control samples used for metagenomic sequencing studies.
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Affiliation(s)
- Michael R Wilson
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | | | - Jeffrey M Gelfand
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | - Hannah A Sample
- Department of Biochemistry and Biophysics, UCSF, San Francisco
| | - Felicia C Chow
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco.,Division of Infectious Diseases, Department of Medicine, UCSF, San Francisco
| | - John P Betjemann
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco.,Web Editor
| | - Maulik P Shah
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | - Megan B Richie
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco.,Images in Neurology Editor
| | - Mark P Gorman
- Department of Neurology, Boston Children's Hospital, Boston, Massachusetts
| | - Rula A Hajj-Ali
- Department of Rheumatology/Immunology, Cleveland Clinic, Cleveland, Ohio
| | | | - Kelsey C Zorn
- Department of Biochemistry and Biophysics, UCSF, San Francisco
| | - Eric D Chow
- Department of Biochemistry and Biophysics, UCSF, San Francisco
| | - John E Greenlee
- Neurology Service, George E. Wahlen Department of Veterans Affairs Medical Center, Salt Lake City, Utah.,Department of Neurology, University of Utah Health, Salt Lake City
| | | | - Gary Green
- Permanente Medical Group, Inc, Oakland, California.,Kaiser Permanente Santa Rosa Medical Center, Santa Rosa, California
| | - Lillian M Khan
- Department of Biochemistry and Biophysics, UCSF, San Francisco
| | - Debarko Banerji
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | - Charles Langelier
- Division of Infectious Diseases, Department of Medicine, UCSF, San Francisco
| | - Chloe Bryson-Cahn
- Division of Allergy and Infectious Diseases, Department of Medicine, School of Medicine, University of Washington, Seattle
| | - Whitney Harrington
- Department of Pediatrics, University of Washington, Seattle.,Seattle Children's Hospital, Seattle, Washington
| | - Jairam R Lingappa
- Division of Allergy and Infectious Diseases, Department of Medicine, School of Medicine, University of Washington, Seattle.,Department of Pediatrics, University of Washington, Seattle.,Department of Pediatric Infectious Diseases, Seattle Children's Hospital, Seattle, Washington.,Department of Global Health, University of Washington, Seattle
| | - Niraj M Shanbhag
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | - Ari J Green
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco.,Associate Editor
| | - Bruce J Brew
- Department of Neurology, St Vincent's Hospital, Darlinghurst, New South Wales, Australia.,The University of New South Wales, Sydney, New South Wales, Australia
| | - Ariane Soldatos
- National Institute of Neurological Disorders and Stroke, National Institutes of Health, Department of Health and Human Services Bethesda, Maryland
| | - Luke Strnad
- Division of Infectious Diseases, Department of Medicine, Oregon Health and Science University, Portland
| | - Sarah B Doernberg
- Division of Infectious Diseases, Department of Medicine, UCSF, San Francisco
| | - Cheryl A Jay
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | - Vanja Douglas
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco
| | - S Andrew Josephson
- UCSF (University of California, San Francisco) Weill Institute for Neurosciences, San Francisco, California.,Department of Neurology, UCSF, San Francisco.,Editor
| | - Joseph L DeRisi
- Department of Biochemistry and Biophysics, UCSF, San Francisco.,Chan Zuckerberg Biohub, San Francisco, California
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11
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Imran D, Estiasari R, Maharani K, Sucipto, Lestari DC, Yunus RE, Yunihastuti E, Karyadi TH, Oei D, Timan IS, Wulandari D, Wahyuningsih R, Adawiyah R, Kurniawan A, Mulyadi R, Karuniawati A, Jaya UA, Safari D, van Laarhoven A, Alisjahbana B, Dian S, Chaidir L, Ganiem AR, Lastri DN, Aye Myint KS, van Crevel R. Presentation, etiology, and outcome of brain infections in an Indonesian hospital: A cohort study. Neurol Clin Pract 2018; 8:379-388. [PMID: 30564491 DOI: 10.1212/cpj.0000000000000517] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2018] [Accepted: 06/08/2018] [Indexed: 11/15/2022]
Abstract
Background Little detailed knowledge is available regarding the etiology and outcome of CNS infection, particularly in HIV-infected individuals, in low-resource settings. Methods From January 2015 to April 2016, we prospectively included all adults with suspected CNS infection in a referral hospital in Jakarta, Indonesia. Systematic screening included HIV testing, CSF examination, and neuroimaging. Results A total of 274 patients with suspected CNS infection (median age 26 years) presented after a median of 14 days with headache (77%), fever (78%), seizures (27%), or loss of consciousness (71%). HIV coinfection was common (54%), mostly newly diagnosed (30%) and advanced (median CD4 cell count 30/µL). Diagnosis was established in 167 participants (65%), including definite tuberculous meningitis (TBM) (n = 44), probable TBM (n = 48), cerebral toxoplasmosis (n = 48), cryptococcal meningitis (n = 14), herpes simplex virus/varicella-zoster virus/cytomegalovirus encephalitis (n = 10), cerebral lymphoma (n = 1), neurosyphilis (n = 1), and mucormycosis (n = 1). In-hospital mortality was 32%; 6-month mortality was 57%. The remaining survivors had either moderate or severe disability (36%) according to Glasgow Outcome Scale. Conclusion In this setting, patients with CNS infections present late with severe disease and often associated with advanced HIV infection. Tuberculosis, toxoplasmosis, and cryptococcosis are common. High mortality and long-term morbidity underline the need for service improvements and further study.
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Affiliation(s)
- Darma Imran
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Riwanti Estiasari
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Kartika Maharani
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Sucipto
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Delly Chipta Lestari
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Reyhan Eddy Yunus
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Evy Yunihastuti
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Teguh Haryono Karyadi
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Diana Oei
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Ina S Timan
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Dewi Wulandari
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Retno Wahyuningsih
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Robiatul Adawiyah
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Agnes Kurniawan
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Rahmad Mulyadi
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Anis Karuniawati
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Ungke Anton Jaya
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Dodi Safari
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Arjan van Laarhoven
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Bachti Alisjahbana
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Sofiati Dian
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Lidya Chaidir
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Ahmad Rizal Ganiem
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Diatri Nari Lastri
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Khin Saw Aye Myint
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
| | - Reinout van Crevel
- Departments of Neurology (DI, RE, KM, Sucipto, DO, DNL), Microbiology (DCL, A. Karuniawati), Radiology (REY, RM), Internal Medicine (EY, THK), Clinical Pathology (IST, DW), and Parasitology (RW, RA, A. Kurniawan), Cipto Mangunkusumo Hospital-Faculty of Medicine Universitas Indonesia; Eijkman Institute for Molecular Biology (UAJ, DS, KSAM); Eijkman-Oxford Clinical Research Unit (UAJ), Jakarta, Indonesia; Department of Internal Medicine and Radboud Center for Infectious Diseases (AvL, RvC), Radboud University Medical Center, Nijmegen, the Netherlands; TB/HIV Research Center (BA, SD, LC, ARG), Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; and Centre for Tropical Medicine and Global Health (RvC), Nuffield Department of Medicine, University of Oxford, UK
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