Publications

Impacts from ICODA’s Driver project teams in terms of Publications, Articles and Pre-prints

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Publications

 

Title Journal Date
Driver Project Abstract

Data capture and sharing in the COVID-19 pandemic: a cause for concern

Lancet Digital Health Sept 2022 DP1-EFCT Routine health care and research have been profoundly influenced by digital-health technologies. These technologies range from primary data collection in electronic health records (EHRs) and administrative claims to web-based artificial-intelligence-driven analyses…
Effect of the COVID-19 pandemic on health service utilization across regions of Ethiopia: An interrupted time series analysis of health information system data from 2019–2020 PLOS Global Public Health Sept 2022 DP – REHCORD The spread of COVID-19 and associated deaths have remained low in Ethiopia. However, the pandemic could pose a public health crisis indirectly through disruptions in essential health services…

Primary healthcare protects vulnerable populations from inequity in COVID-19 vaccination: An ecological analysis of nationwide data from Brazil

 

The Lancet Regional Health Americas

August 2022 DP-EFFECT BRAZIL There is limited information on the inequity of access to vaccination in low-and-middle-income countries during the COVID-19 pandemic. Here, we described the progression of the Brazilian immunisation program for COVID-19, and the association of socioeconomic development with vaccination rates, considering the potential protective effect of primary health care coverage…
ISARIC-COVID-19 dataset: A Prospective, Standardized, Global Dataset of Patients Hospitalized with COVID-19

Nature Scientific Data

July 2022 DP-ISARIC The International Severe Acute Respiratory and Emerging Infection Consortium (ISARIC) COVID-19 dataset is one of the largest international databases of prospectively collected clinical data on people hospitalized with COVID-19…

Outcomes of laboratory-confirmed SARS-CoV-2 infection in the Omicron-driven fourth wave compared with previous waves in the Western Cape Province, South Africa

Wiley online library

June 2022 DP – ACCORD The objective was to compare COVID-19 outcomes in the Omicron-driven fourth wave with prior waves in the Western Cape, assess the contribution of undiagnosed prior infection to differences in outcomes in a context of high seroprevalence due to prior infection and determine whether protection against severe disease conferred by prior infection and/or vaccination was maintained…

Assessing the clinical severity of the Omicron variant in the Western Cape Province, South Africa, using the diagnostic PCR proxy marker of RdRp target delay to distinguish between Omicron and Delta infections – a survival analysis

 

International Journal of Infectious Diseases

May 2022 DP-ACCORD At present, it is unclear whether the extent of reduced risk of severe disease seen with SARS-Cov-2 Omicron variant infection is caused by a decrease in variant virulence or by higher levels of population immunity…
Overcoming disruptions in essential health services during the COVID-19 pandemic in Mexico

BMJ Global Health

Mar 2022 DP-REHCORD Significant disruptions in health services during the first year of the COVID-19 pandemic prompted the Mexican Institute of Social Security (IMSS) to implement the National Strategy for Health Services Recovery (NHSR strategy) to ensure resumption of essential health services provided to almost 68 million IMSS affiliates…

Vaccine effectiveness of ChAdOx1 nCoV-19 against COVID-19 in a socially vulnerable community in Rio de Janeiro, Brazil: a test-negative design study

Clinical Microbiology and Infection

Mar 2022 DP-EFFECT To estimate the vaccine effectiveness after first and second dose of ChAdOx1 nCoV-19 against symptomatic COVID-19 and infection in a socially vulnerable community in Brazil when Gamma and Delta were the predominant variants circulating…

COVID-19 and resilience of healthcare systems in ten countries

 

Nature Medicine

Mar 2022 DP-REHCORD Declines in health service use during the Coronavirus Disease 2019 (COVID-19) pandemic could have important effects on population health. In this study, we used an interrupted time series design to assess the immediate effect of the pandemic on 31 health services…

Modeling comparative cost-effectiveness of SARS-CoV-2 vaccine dose fractionation in India

 

Nature Magazine

Feb 2022 DP-CHAIN Given global Coronavirus Disease 2019 (COVID-19) vaccine shortages and inequity of vaccine distributions, fractionation of vaccine doses might be an effective strategy for reducing public health and economic burden, notwithstanding the emergence of new variants of concern…

Reproduction Numbers of SARS-CoV-2 Variants: A Systematic Review and Meta-analysis 

Oxford Academic

Feb 2022 DP-CHAIN The COVID-19 pandemic continues to pose substantial risks to public health, worsened by the emergence of SARS-CoV-2 variants which may have a higher transmissibility and reduce vaccine effectiveness…

Reduced amplification efficiency of the RNA-dependent-RNA-polymerase target enables tracking of the Delta SARS-CoV-2 variant using routine diagnostic tests

Journal of Virological Methods

Jan 2022 DP-ACCORD Routine SARS-CoV-2 surveillance in the Western Cape region of South Africa (January-August 2021) found a reduced RT-PCR amplification efficiency of the RdRp-gene target of the Seegene, Allplex 2019-nCoV diagnostic assay from June 2021 when detecting the Delta variant…
Disruption in essential health services in Mexico during COVID-19: an interrupted time series analysis of health information system data BMJ Global Health Aug 2021 DP-REHCORD The COVID-19 pandemic has disrupted health systems around the world. The objectives of this study are to estimate the overall effect of the pandemic on essential health service use and outcomes in Mexico, describe observed and predicted trends in services over 24 months, and to estimate the number of visits lost through December 2020
Pacifying A Pandemic With Numbers Invivo – Informa Pharma Intelligence Jun 2021 DP1-EFCT Powered by prominent global health philanthropies and the UK’s world-class collaborative capabilities in disease surveillance, the new International COVID-19 Data Alliance (ICODA) is gearing up to address a crucial – and yet unanswered – policy question for public health: can sharing data curated from a diversity of sources provide the hard evidence needed to improve patient outcomes against the virus – not just for today’s pandemic, but for future ones as well? Much will depend on a robust response from big pharma…

The urgent need for better coordination across the global data sharing landscape

ICODA Jun 2021 ICODA Mapping of the landscape of COVID-19 data-related activities

 

Articles

Title Journal Date 
Driver Project Abstract
Translating data in a pandemic Lancet Digital Health Sept 2022 DP1-EFCT During the global COVID-19 pandemic, researchers and clinicians have investigated how best to leverage technology and big data to provide virtual clinical care, model the effect of health policies on transmission, identify novel therapeutic treatments, and more…

Grand Challenges ICODA Data Science Initiative – Blog 3

Aridhia May 2022 DP-RASUP One of several driver projects from Brazil-based Oswaldo Cruz Foundation (Fiocruz), this one is led by a team of four: lead PI Juliane Oliveira, a mathematician and researcher at Fiocruz and at the Universidade do Porto (Portugal)…

Assessing the spread risk of COVID-19 associated with multi-mode transportation networks in China

Science Direct April 2022 DP-CHAIN The spatial spread of COVID-19 during early 2020 in China was primarily driven by outbound travelers leaving
the epicenter, Wuhan, Hubei province…

Grand Challenges ICODA Data Science Initiative – Blog 2

Aridhia Mar 2022 DP-PIH CovCo This driver project from Partners In Health and Harvard Medical School looks to examine how the pandemic has impacted the care received by chronic care patients in four countries: Haiti, Malawi, Mexico and Rwanda…

Grand Challenges ICODA Data Science Initiative – Blog 1

 

Aridhia Nov 2021 DP-CHAIN A few months ago, we reported on the launch of the Grand Challenges ICODA Data Science initiative by the Bill & Melinda Gates Foundation. These 10 projects will use the ICODA Workbench (powered by Aridhia’s DRE) to explore the answers to critical research questions relating to COVID-19. Over the coming weeks, we will take a look at some of these projects and what they aim to achieve…

Data and Analytics – Put your expertise to work to address the COVID-19 pandemic

Biopharmaceutical report Sep 2021 DP1-EFCT The worldwide toll of the COVID-19 pandemic is substantial, so is the response of the many professionals in healthcare. Be it in the patient care, research or government sectors, many talented experts have joined together to advance the development of treatments to

address infections from the virus

Pandemic upheaval offers a huge natural experiment

Nature Aug 2021 DP2-iPOP The disruption that the coronavirus has caused to daily life has created unique research opportunities for scientists
Clinical and Investigative Medicine June 2021 DP2-iPOP Meghan Azad and Nathalie Rodriguez share share their Top 10 Tips for defining and achieving success in Team Science

The international Perinatal Outcomes in the Pandemic (iPOP) study: protocol

Wellcome Open Research Feb 2021 DP2-iPOP Preterm birth is the leading cause of infant death worldwide, but the causes of preterm birth are largely unknown…

Open Science to Address COVID-19: Sharing Data to Make Our Research Investment Go Further

Springer Nature Dec 2020 DP1-EFCT Over 1000 randomized clinical trials (RCTs) for the treatment and prevention of COVID-19 have been initiated. With access to the data from RCTs, researchers can integrate and summarize findings, evaluate new hypotheses, design future trials, and prioritize the next research questions to be addressed…

Enabling a healthy start
for vulnerable newborns

The Lancet Oct 2020 DP2-iPOP As co ­leads of the new international Perinatal Outcomes in the Pandemic (iPOP) Consortium, we are delighted that the Lancet Small Vulnerable Newborn Series1 will focus cross­sector attention on the high burden of baby deaths (encompassing miscarriage, stillbirth, and neonatal mortality) and disability (following preterm birth
and low birthweight), which remain
largely intractable with current siloed approaches

Pre-prints

Title Journal Date
Driver Project Abstract

Prognostic accuracy of triage tools for adults with suspected COVID-19 in a middle-income setting: an observational cohort study

medRXiv Aug 2022 DP-PRIEST Tools proposed to triage acuity in suspected COVID-19 in the ED have been derived and validated in higher-income settings during early waves of the pandemic. We estimated the accuracy of seven risk-stratification tools recommended to predict severe illness in the Western Cape, South Africa…

Outcomes of laboratory-confirmed SARS-CoV-2 infection during resurgence driven by Omicron lineages BA.4 and BA.5 compared with previous waves in the Western Cape Province, South Africa

 

medRXiv Jul 2022 DP – ACCORD We aimed to compare clinical severity of Omicron BA.4/BA.5 infection with BA.1 and earlier variant infections among laboratory-confirmed SARS-CoV-2 cases in the Western Cape, South Africa, using timing of infection to infer the lineage/variant causing infection…
Profile of COVID-19 in Brazil: Risk Factors and Socioeconomic Vulnerability Associated with Disease Outcome

The Lancet April 2022 DP-RASUP Background: COVID-19 spread at different rates across the globe, and severe outcomes of the disease are influenced by clinical and socioeconomic elements…

Epidemiologic Information Discovery from Open-Access COVID-19 Case Reports Via Pretrained Language Model

SSRN Mar 2022 DP-CHAIN Although open-access data are increasing common and useful to epidemiological research, curation of such datasets is resource-intensive and time-consuming…

Outcomes of laboratory-confirmed SARS-CoV-2 infection in the Omicron-driven fourth wave compared with previous waves in the Western Cape Province, South Africa

medRXiv Jan 2022 DP-ACCORD We aimed to compare COVID-19 outcomes in the Omicron-driven fourth wave with prior waves in the Western Cape, the contribution of undiagnosed prior infection to differences in outcomes in a context of high seroprevalence due to prior infection, and whether protection against severe disease conferred by prior infection and/or vaccination was maintained.

Assessing the clinical severity of the Omicron variant in the Western Cape Province, South Africa, using the diagnostic PCR proxy marker of RdRp target delay to distinguish between Omicron and Delta infections – a survival analysis

medRXiv Jan 2022 DP-ACCORD Emerging data suggest that SARS-CoV-2 Omicron variant of concern (VOC)is associated with reduced risk of severe disease. The extent to which this reflects a difference in the inherent virulence of Omicron, or just higher levels of population immunity, is currently not clear.

Higher mortality associated with the SARS-CoV-2 Delta variant in the Western Cape, South Africa, using RdRp target delay as a proxy

medRXiv Oct 2021 DP-ACCORD A novel proxy for the Delta variant, RNA-dependent RNA polymerase target delay in the Seegene Allplex™ 2019-nCoV PCR assay, was associated with higher mortality (adjusted Odds Ratio 1.45 [95%CI 1.13-1.86]), compared to presumptive Beta infection, in the Western Cape, South Africa (April-July 2021). Prior diagnosed infection and vaccination were protective.