List of works by Mark Nicol

"A very humiliating illness": a qualitative study of patient-centered Care for Rifampicin-Resistant Tuberculosis in South Africa

scientific article published on 17 January 2020

'SILVAMP TB LAM' rapid urine tuberculosis test predicts mortality in hospitalized HIV patients in South Africa

scientific article published on 09 January 2020

A Blueprint to Address Research Gaps in the Development of Biomarkers for Pediatric Tuberculosis

scientific article

A clinical scoring system to prioritise investigation for tuberculosis among adults attending HIV clinics in South Africa

scientific article

A comparison of the efficiency of five different commercial DNA extraction kits for extraction of DNA from faecal samples

scientific article published on 14 May 2013

A deletion defining a common Asian lineage of Mycobacterium tuberculosis associates with immune subversion

scholarly article

A multisite assessment of the quantitative capabilities of the Xpert MTB/RIF assay

scientific article published on November 2011

Accuracy of Xpert MTB/RIF Ultra for the Diagnosis of Pulmonary Tuberculosis in Children.

scientific article published on 22 February 2018

Accuracy of the Xpert MTB/RIF test for the diagnosis of pulmonary tuberculosis in children admitted to hospital in Cape Town, South Africa: a descriptive study

scientific article

Acquired predisposition to mycobacterial disease due to autoantibodies to IFN-gamma

scientific article

Advances in the diagnosis of pneumonia in children

scientific article

Aetiology of childhood pneumonia in a well vaccinated South African birth cohort: a nested case-control study of the Drakenstein Child Health Study

scientific article published on 21 April 2016

Age-related waning of immune responses to BCG in healthy children supports the need for a booster dose of BCG in TB endemic countries

scientific article published in Scientific Reports

Analytical and Clinical Evaluation of the Epistem Genedrive Assay for Detection of Mycobacterium tuberculosis

scientific article published on 10 February 2016

Association between Gc genotype and susceptibility to TB is dependent on vitamin D status

scientific article

Association of maternal prenatal psychological stressors and distress with maternal and early infant faecal bacterial profile

scientific article published on 20 December 2019

Azithromycin versus placebo for the treatment of HIV-associated chronic lung disease in children and adolescents (BREATHE trial): study protocol for a randomised controlled trial

scientific article published on 28 December 2017

Breath can discriminate tuberculosis from other lower respiratory illness in children

scientific article published on 01 February 2021

Brief Report: Real-World Performance and Interobserver Agreement of Urine Lipoarabinomannan in Diagnosing HIV-Associated Tuberculosis in an Emergency Center

scientific article published on 01 May 2019

Carriage of extended-spectrum beta-lactamase-producing Enterobacteriaceae in HIV-infected children in Zimbabwe.

scientific article published on 18 May 2017

Characterisation of STEC and other diarrheic E. coli isolated on CHROMagar™STEC at a tertiary referral hospital, Cape Town.

scientific article

Childhood tuberculosis is associated with decreased abundance of T cell gene transcripts and impaired T cell function.

scientific article

Clinical Predictors of Culture-confirmed Pulmonary Tuberculosis in Children in a High Tuberculosis and HIV Prevalence Area

scientific article published on September 2015

Clinical, microbiologic, and immunologic determinants of mortality in hospitalized patients with HIV-associated tuberculosis: A prospective cohort study

scientific article published on 05 July 2019

Comparison of T-SPOT.TB assay and tuberculin skin test for the evaluation of young children at high risk for tuberculosis in a community setting

scientific article published in January 2009

Comparison of a Real-Time Multiplex PCR and Sequetyping Assay for Pneumococcal Serotyping

scientific article published on 3 September 2015

Composition of Gut Microbiota of Children and Adolescents With Perinatal Human Immunodeficiency Virus Infection Taking Antiretroviral Therapy in Zimbabwe

scientific article published in January 2020

Correction to: Diagnostic accuracy of the Xpert MTB/Rif Ultra for tuberculosis adenitis

scientific article published on 02 March 2020

Cost utility of lateral-flow urine lipoarabinomannan for tuberculosis diagnosis in HIV-infected African adults.

scientific article published on April 2013

Current Knowledge and Future Research Directions on Fecal Bacterial Patterns and Their Association with Asthma

scientific article published on 29 June 2016

Cytotoxic mediators in paradoxical HIV-tuberculosis immune reconstitution inflammatory syndrome

scientific article

Delays and loss to follow-up before treatment of drug-resistant tuberculosis following implementation of Xpert MTB/RIF in South Africa: A retrospective cohort study

scientific article

Detection of Streptococcus pneumoniae from Different Types of Nasopharyngeal Swabs in Children.

scientific article

Determine TB-LAM lateral flow urine antigen assay for HIV-associated tuberculosis: recommendations on the design and reporting of clinical studies

scientific article

Development of a clinical prediction rule to diagnose pneumonia in the World Health Organization's algorithm for seriously ill HIV-infected patients

scientific article published on 23 July 2018

Development of a real-time PCR assay and comparison to CHROMagarTM STEC to screen for Shiga toxin-producing Escherichia coli in stool, Cape Town, South Africa

scientific article published on 14 December 2017

Diagnosis of Pulmonary Tuberculosis in Children: Assessment of the 2012 National Institutes of Health Expert Consensus Criteria

scientific article

Diagnosis of pulmonary tuberculosis in children: new advances

scientific article published on March 2010

Diagnostic Accuracy of Lateral Flow Urine LAM Assay for TB Screening of Adults with Advanced Immunosuppression Attending Routine HIV Care in South Africa

scientific article

Diagnostic Test Accuracy in Childhood Pulmonary Tuberculosis: A Bayesian Latent Class Analysis

scientific article published on 13 October 2016

Diagnostic accuracy of Xpert MTB/RIF for extrapulmonary tuberculosis specimens: establishing a laboratory testing algorithm for South Africa

scientific article

Diagnostic accuracy of a novel tuberculosis point-of-care urine lipoarabinomannan assay for people living with HIV: A meta-analysis of individual in- and outpatient data

scientific article published on 01 May 2020

Diagnostic accuracy of a rapid urine lipoarabinomannan test for tuberculosis in HIV-infected adults

scientific article

Diagnostic accuracy of the Xpert MTB/Rif Ultra for tuberculosis adenitis

scientific article published on 13 January 2020

Diagnostic accuracy of two multiplex real-time polymerase chain reaction assays for the diagnosis of meningitis in children in a resource-limited setting.

scientific article

Diagnostic accuracy, incremental yield and prognostic value of Determine TB-LAM for routine diagnostic testing for tuberculosis in HIV-infected patients requiring acute hospital admission in South Africa: a prospective cohort

scientific article

Diagnostic sensitivity of SILVAMP TB-LAM (FujiLAM) point-of-care urine assay for extra-pulmonary tuberculosis in people living with HIV

scientific article published on 06 February 2020

Disseminated tuberculosis among hospitalised HIV patients in South Africa: a common condition that can be rapidly diagnosed using urine-based assays

scientific article published on 7 September 2017

Distinct Patterns in Human Milk Microbiota and Fatty Acid Profiles Across Specific Geographic Locations

scientific article published on 13 October 2016

Distribution of strain families of Mycobacterium tuberculosis causing pulmonary and extrapulmonary disease in hospitalized children in Cape Town, South Africa

scientific article

Diverse clinical and social circumstances: developing patient-centred care for DR-TB patients in South Africa

scientific article published on 01 September 2021

Dose response of CRM197 and tetanus toxoid-conjugated Haemophilus influenzae type b vaccines

scientific article published in December 2004

Drug-resistant tuberculosis patient care journeys in South Africa: a pilot study using routine laboratory data

scientific article published on 01 January 2020

Editorial commentary: dead or alive: can viability staining predict response to tuberculosis treatment?

scientific article published on 23 December 2014

Effect of Xpert MTB/RIF on clinical outcomes in routine care settings: individual patient data meta-analysis

article by Gian Luca Di Tanna et al published February 2019 in The Lancet Global Health

Effect of empirical treatment on outcomes of clinical trials of diagnostic assays for tuberculosis

scholarly article by Stephen Lawn et al published January 2015 in Lancet Infectious Diseases

Enhanced anti-mycobacterial immunity in children with erythema nodosum and a positive tuberculin skin test

scientific article

Enzyme-Linked Immunospot Assay Responses to Early Secretory Antigenic Target 6, Culture Filtrate Protein 10, and Purified Protein Derivative among Children with Tuberculosis: Implications for Diagnosis and Monitoring of Therapy

article

Etiology of Pulmonary Infections in Human Immunodeficiency Virus-infected Inpatients Using Sputum Multiplex Real-time Polymerase Chain Reaction

scientific article published on 01 March 2020

Evidence Guiding the Treatment of Children with Mycobacterial Diseases

article

Failure to control growth of mycobacteria in blood from children infected with human immunodeficiency virus and its relationship to T cell function

scientific article published on 30 April 2003

False rifampicin resistant results using Xpert MTB/RIF on urine samples in hospitalised HIV-infected patients

scientific article published on 28 August 2019

Feasibility, diagnostic accuracy, and effectiveness of decentralised use of the Xpert MTB/RIF test for diagnosis of tuberculosis and multidrug resistance: a multicentre implementation study

scientific article (publication date: 30 April 2011)

Fecal Carriage of Staphylococcus aureus in the Hospital and Community Setting: A Systematic Review

scientific article

Gene expression in cord blood links genetic risk for neurodevelopmental disorders with maternal psychological distress and adverse childhood outcomes

article

GeneXpert MTB/RIF version G4 for identification of rifampin-resistant tuberculosis in a programmatic setting

scientific article

Genome Sequence for Shiga Toxin-Producing Escherichia coli O26:H11, Associated with a Cluster of Hemolytic-Uremic Syndrome Cases in South Africa, 2017.

scientific article published on 21 September 2017

Global, regional, and national disease burden estimates of acute lower respiratory infections due to respiratory syncytial virus in young children in 2015: a systematic review and modelling study

scientific article

Guidance for Studies Evaluating the Accuracy of Sputum-Based Tests to Diagnose Tuberculosis

scientific article published on 01 October 2019

HIV-Related Medical Admissions to a South African District Hospital Remain Frequent Despite Effective Antiretroviral Therapy Scale-Up

scientific article published on December 2015

HIV-exposure, early life feeding practices and delivery mode impacts on faecal bacterial profiles in a South African birth cohort.

scientific article

Haemophilus influenzae type b conjugate vaccine diluted tenfold in diphtheria-tetanus-whole cell pertussis vaccine: a randomized trial

scientific article published on 01 February 2002

High levels of multidrug resistant tuberculosis in new and treatment-failure patients from the Revised National Tuberculosis Control Programme in an urban metropolis (Mumbai) in Western India

scientific article

Highly sensitive sequence specific qPCR detection of Mycobacterium tuberculosis complex in respiratory specimens

scientific article

How can mathematical models advance tuberculosis control in high HIV prevalence settings?

scientific article

How should tuberculosis molecular diagnostics be adapted for use in seriously ill HIV patients?

scientific article published on 8 November 2016

Human Breast Milk Bacteriome in Health and Disease

article

Human brucellosis in South Africa: Public health and diagnostic pitfalls

scientific article published on August 2016

Human microbiota research in Africa: a systematic review reveals gaps and priorities for future research

publication published on 15 December 2021

Impact of Decentralized Care and the Xpert MTB/RIF Test on Rifampicin-Resistant Tuberculosis Treatment Initiation in Khayelitsha, South Africa

scientific article

Impact of Point-of-care Xpert MTB/RIF on Tuberculosis Treatment Initiation: A Cluster Randomised Trial.

scientific article published on 20 July 2017

Impact of Xpert MTB/RIF for TB diagnosis in a primary care clinic with high TB and HIV prevalence in South Africa: a pragmatic randomised trial

scientific article (publication date: November 2014)

Impact of a novel molecular TB diagnostic system in patients at high risk of TB mortality in rural South Africa (Uchwepheshe): study protocol for a cluster randomised trial

scientific article published on 12 June 2013

Improved method for collection of sputum for tuberculosis testing to ensure adequate sample volumes for molecular diagnostic testing

scientific article published on 31 January 2017

Improving the design of studies evaluating the impact of diagnostic tests for tuberculosis on health outcomes: a qualitative study of perspectives of diverse stakeholders

scientific article published on 21 November 2019

Incidence and Diagnosis of Pertussis in South African Children Hospitalized With Lower Respiratory Tract Infection

scientific article published on 10 March 2016

Incidence and severity of childhood pneumonia in the first year of life in a South African birth cohort: the Drakenstein Child Health Study

scientific article published on February 2015

Incidence of childhood pneumonia: facility-based surveillance estimate compared to measured incidence in a South African birth cohort study

scientific article

Increasing the value of health research in the WHO African Region beyond 2015--reflecting on the past, celebrating the present and building the future: a bibliometric analysis

scientific article

Incremental value of T-SPOT.TB for diagnosis of active pulmonary tuberculosis in children in a high-burden setting: a multivariable analysis

scientific article published on 14 May 2013

Indoor air pollution and tobacco smoke exposure: impact on nasopharyngeal bacterial carriage in mothers and infants in an African birth cohort study

scholarly article by Aneesa Vanker et al published February 2019 in ERJ open research

Influence of Socio-Economic and Psychosocial Profiles on the Human Breast Milk Bacteriome of South African Women

scientific article published on 20 June 2019

Investigating the early-life determinants of illness in Africa: the Drakenstein Child Health Study.

scientific article

Longitudinal Dynamics of a Blood Transcriptomic Signature of Tuberculosis

scientific article published on 01 December 2021

Longitudinal Population Dynamics of in the Nasopharynx During the First Year of Life

Longitudinal characterization of nasopharyngeal colonization with Streptococcus pneumoniae in a South African birth cohort post 13-valent pneumococcal conjugate vaccine implementation

scientific article published in Scientific Reports

Lower Respiratory Tract Infections in Children in a Well-vaccinated South African Birth Cohort: Spectrum of Disease and Risk Factors

scientific article published on 01 October 2019

Microbiological diagnosis of pulmonary tuberculosis in children by oral swab polymerase chain reaction

scientific article published on 25 July 2019

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

scientific article

Modern lineages of Mycobacterium tuberculosis exhibit lineage-specific patterns of growth and cytokine induction in human monocyte-derived macrophages

scientific article

Molecular characterisation and epidemiological investigation of an outbreak of blaOXA-181 carbapenemase-producing isolates of Klebsiella pneumoniae in South Africa

scientific article published on 8 November 2015

Molecular epidemiology of Methicillin-resistant Staphylococcus aureus in Africa: a systematic review

scientific article

Multicenter Study of the Accuracy of the BD MAX™ MDR-TB Assay for Detection of Mycobacterium tuberculosis Complex and Mutations Associated with Resistance to Rifampin and Isoniazid

scientific article published on 27 September 2019

Nasopharyngeal Carriage of Antimicrobial-Resistant Pneumococci in an Intensively Sampled South African Birth Cohort

scientific article published in 2019

New specimens and laboratory diagnostics for childhood pulmonary TB: progress and prospects

scientific article

Novel lipoarabinomannan point-of-care tuberculosis test for people with HIV: a diagnostic accuracy study

scientific article published on 30 May 2019

Optimizing Tuberculosis Diagnosis in HIV-Infected Inpatients Meeting the Criteria of Seriously Ill in the WHO Algorithm.

scientific article published on 6 November 2017

Outbreak of multi-drug resistant Pseudomonas aeruginosa bloodstream infection in the haematology unit of a South African Academic Hospital

scientific article

Potential contribution of HIV during first-line tuberculosis treatment to subsequent rifampicin-monoresistant tuberculosis and acquired tuberculosis drug resistance in South Africa: a retrospective molecular epidemiology study

scientific article published on 01 November 2021

Precision medicine for drug-resistant tuberculosis in high-burden countries: is individualised treatment desirable and feasible?

scientific article

Prevalence and antibiotic susceptibility patterns of enteric bacterial pathogens in human and non-human sources in an urban informal settlement in Cape Town, South Africa

scientific article published on 06 November 2019

Preventing tuberculosis-related death in children with HIV.

scientific article published on 23 November 2017

Proteomic comparison of three clinical diarrhoeagenic drug-resistant Escherichia coli isolates grown on CHROMagar™STEC media

scientific article published on 5 September 2017

Rapid diagnosis of pediatric mycobacterial lymphadenitis using fine needle aspiration biopsy

scientific article published on September 2014

Rapid diagnosis of pulmonary tuberculosis in African children in a primary care setting by use of Xpert MTB/RIF on respiratory specimens: a prospective study

scientific article published on 24 July 2013

Rapid diagnosis of tuberculosis with the Xpert MTB/RIF assay in high burden countries: a cost-effectiveness analysis

scientific article

Rapid genotypic assays to identify drug-resistant Mycobacterium tuberculosis in South Africa

scientific article

Rapid microbiological screening for tuberculosis in HIV-positive patients on the first day of acute hospital admission by systematic testing of urine samples using Xpert MTB/RIF: a prospective cohort in South Africa

scientific article published on 14 August 2015

Rapid molecular diagnosis of pulmonary tuberculosis in children using nasopharyngeal specimens

scientific article

Recent and rapid emergence of W-Beijing strains of Mycobacterium tuberculosis in Cape Town, South Africa

scientific article

Reconstitution of antimycobacterial immune responses in HIV-infected children receiving HAART.

scientific article published in April 2006

Regulatory T Cells and Pro-inflammatory Responses Predominate in Children with Tuberculosis

scientific article

Remembering the basics: interventions to improve sputum collection for tuberculosis diagnosis.

scientific article published on 15 June 2017

Research capacity. Enabling the genomic revolution in Africa

scientific article published in June 2014

Respiratory microbes present in the nasopharynx of children hospitalised with suspected pulmonary tuberculosis in Cape Town, South Africa

scientific article

Reversion and conversion of Mycobacterium tuberculosis IFN-gamma ELISpot results during anti-tuberculous treatment in HIV-infected children

scientific article

Safety and efficacy of induced sputum in young children hospitalised with suspected pulmonary tuberculosis

scientific article published on January 2014

Screening for HIV-associated tuberculosis and rifampicin resistance before antiretroviral therapy using the Xpert MTB/RIF assay: a prospective study

scientific article

Serologic Responses in Childhood Pulmonary Tuberculosis.

scientific article

Shiga toxin-producing Escherichia coli O26:H11 associated with a cluster of haemolytic uraemic syndrome cases in South Africa, 2017

scientific article published on 12 September 2019

Strains of Mycobacterium tuberculosis from western Maharashtra, India, exhibit a high degree of diversity and strain-specific associations with drug resistance, cavitary disease, and treatment failure

scientific article

Strengthening Diagnosis of Pulmonary Tuberculosis in Children: The Role of Xpert MTB/RIF Ultra

scientific article published on 01 November 2019

The Determinants of the Human Milk Metabolome and Its Role in Infant Health

scientific article published on 20 February 2020

The Influence of HIV on the Evolution of Mycobacterium tuberculosis

scientific article

The accuracy of extended-spectrum beta-lactamase detection in Escherichia coli and Klebsiella pneumoniae in South African laboratories using the Vitek 2 Gram-negative susceptibility card AST-N255

scientific article published in 2019

The clinical consequences of strain diversity in Mycobacterium tuberculosis

scientific article published on 29 May 2008

The spread of carbapenemase-producing bacteria in Africa: a systematic review

scientific article

Transmission of Mycobacterium tuberculosis undetected by tuberculin skin testing

scientific article published on 2 February 2006

Treatment of bronchiectasis exacerbations in children: which antibiotic?

scientific article published in The Lancet

Tuberculin skin test conversion and primary progressive tuberculosis disease in the first 5 years of life: a birth cohort study from Cape Town, South Africa

article

Tuberculosis Diagnosis in Children Using Xpert Ultra on Different Respiratory Specimens

scientific article published on 01 December 2019

Tuberculosis Diagnostics: State of the Art and Future Directions

scientific article published on October 2016

Tuberculosis eradication: renewed commitment and global investment required

scientific article published on 6 December 2017

Type 1 helper T cells and FoxP3-positive T cells in HIV-tuberculosis-associated immune reconstitution inflammatory syndrome

scientific article published on 28 August 2008

Underestimation of the True Specificity of the Urine Lipoarabinomannan Point-of-Care Diagnostic Assay for HIV-Associated Tuberculosis

scientific article published on August 2015

Urine lipoarabinomannan testing for diagnosis of pulmonary tuberculosis in children: a prospective study

scientific article

Using Xpert MTB/RIF

scientific article published on June 2013

Utility of Second-Generation Line Probe Assay (Hain MTBDRplus) Directly on 2-Month Sputum Specimens for Monitoring Tuberculosis Treatment Response

scientific article

VIM-2 metallo-β-lactamase-producing Pseudomonas aeruginosa causing an outbreak in South Africa

scientific article

Variable host-pathogen compatibility in Mycobacterium tuberculosis

scientific article (publication date: 21 February 2006)

Variation in the observed effect of Xpert MTB/RIF testing for tuberculosis on mortality: A systematic review and analysis of trial design considerations

scientific article published on 12 November 2019

Whole-Genome Sequencing Has the Potential To Improve Treatment for Rifampicin-Resistant Tuberculosis in High-Burden Settings: a Retrospective Cohort Study

scientific article published on 16 March 2022

Xpert MTB/RIF Ultra for detection of Mycobacterium tuberculosis and rifampicin resistance: a prospective multicentre diagnostic accuracy study

scientific article published on 30 November 2017

Xpert MTB/RIF Ultra: a gamechanger for tuberculous meningitis?

scientific article published on 14 September 2017

Xpert MTB/RIF for rapid diagnosis of tuberculous lymphadenitis from fine-needle-aspiration biopsy specimens

scientific article published on 31 August 2011

Xpert MTB/RIF test for tuberculosis – Authors' reply

scientific article published in The Lancet

Xpert MTB/RIF testing of stool samples for the diagnosis of pulmonary tuberculosis in children

scientific article published on 11 April 2013

Xpert MTB/RIF versus sputum microscopy as the initial diagnostic test for tuberculosis: a cluster-randomised trial embedded in South African roll-out of Xpert MTB/RIF.

scientific article published on August 2015

Xpert MTB/RIF: monitoring response to tuberculosis treatment

scientific article published on July 2013

Xpert® MTB/RIF assay: development, evaluation and implementation of a new rapid molecular diagnostic for tuberculosis and rifampicin resistance

scientific article

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