List of works - Sunetra Gupta

A model for pathogen population structure with cross-protection depending on the extent of overlap in antigenic variant repertoires.

scientific article

A multi-country study of dengue vaccination strategies with Dengvaxia and a future vaccine candidate in three dengue-endemic countries: Vietnam, Thailand, and Colombia

scientific article published on 21 March 2018

A naturally protective epitope of limited variability as an influenza vaccine target

scientific article published in Nature Communications

A potent neutralizing epitope of limited variability in the head domain of haemagglutinin as a novel influenza vaccine target

Acquisition of Streptococcus pneumoniae and Nonspecific Morbidity in Infants and Their Families

scientific article published on 01 February 2005

Analysis of HIV-1 envelope evolution suggests antibody-mediated selection of common epitopes among Chinese former plasma donors from a narrow-source outbreak

scientific article published on 10 April 2018

Antigenic variation in Plasmodium falciparum malaria involves a highly structured switching pattern

scientific article

Assessing the burden of pregnancy-associated malaria under changing transmission settings

scientific article published on 28 October 2009

Capsular serotype-specific attack rates and duration of carriage of Streptococcus pneumoniae in a population of children

scientific article

Challenges in dengue research: A computational perspective.

scientific article

Competing species leave many potential niches unfilled.

scientific article

Contact between bird species of different lifespans can promote the emergence of highly pathogenic avian influenza strains

scientific article

Contrasting within- and between-host immune selection shapes Neisseria Opa repertoires

scientific article published on 09 October 2014

Correction: Quantifying the contribution of Plasmodium falciparum malaria to febrile illness amongst African children.

scientific article published on 16 May 2018

Detecting signatures of past pathogen selection on human HLA loci: are there needles in the haystack?

scientific article

Detection of neutralising antibodies to SARS-CoV-2 to determine population exposure in Scottish blood donors between March and May 2020

scientific article published on 01 October 2020

Effects of epistasis on infectivity range during host-parasite coevolution

scientific article

Effects of neutralizing antibodies on escape from CD8+ T-cell responses in HIV-1 infection

scientific article published on August 2015

Epistasis and the sensitivity of phenotypic screens for beta thalassaemia

scientific article

Epistasis and the sensitivity of phenotypic screens for beta thalassaemia.

scientific article published on 22 September 2014

Epistatic interactions between genetic disorders of hemoglobin can explain why the sickle-cell gene is uncommon in the Mediterranean

scientific article published on December 2009

Erratum: Observed and expected frequencies of structural hemoglobin variants in newborn screening surveys in Africa and the Middle East: deviations from Hardy-Weinberg equilibrium

article

Estimating the burden of α-thalassaemia in Thailand using a comprehensive prevalence database for Southeast Asia

scholarly article published 12 September 2018

Estimating the burden of α-thalassaemia in Thailand using a comprehensive prevalence database for Southeast Asia

scientific article published on 23 May 2019

Evolution and immunology of infectious diseases: what’s new?

scientific article published in 2004

Evolution of virulence in malaria

scientific article

Five challenges in modelling interacting strain dynamics

scientific article published on 7 October 2014

Fundamental principles of epidemic spread highlight the immediate need for large-scale serological surveys to assess the stage of the SARS-CoV-2 epidemic

scientific article (preprint)

Genome-wide association studies in Plasmodium species

scientific article

Global burden of sickle cell anaemia in children under five, 2010-2050: modelling based on demographics, excess mortality, and interventions

scientific article

Global migration and the changing distribution of sickle haemoglobin: a quantitative study of temporal trends between 1960 and 2000.

scientific article

Great Barrington Declaration ⬇️

proposal to end most COVID-19 restrictions for those at low risk; "Focused Protection" is advocated

HBV vaccination and PMTCT as elimination tools in the presence of HIV: insights from a clinical cohort and dynamic model

Hepatitis B virus seroepidemiology data for Africa: Modelling intervention strategies based on a systematic review and meta-analysis

scientific article published on 21 April 2020

High residual carriage of vaccine-serotype Streptococcus pneumoniae after introduction of pneumococcal conjugate vaccine in Malawi

scientific article published on 06 May 2020

High residual prevalence of vaccine serotype Streptococcus pneumoniae carriage 4 to 6 years after introduction of 13-valent pneumococcal conjugate vaccine in Malawi: a prospective serial cross-sectional study

scientific article published on 26 October 2018

Host community structure and the maintenance of pathogen diversity.

scientific article published in July 2007

How has publishing changed in the last twenty years?

scientific article published on 31 August 2016

Identifying Streptococcus pneumoniae genes associated with invasive disease using pangenome-based whole genome sequence typing

scientific article published on 4 May 2018

Identifying genes associated with invasive disease in S. pneumoniae by applying a machine learning approach to whole genome sequence typing data

article

Immunological serotype interactions and their effect on the epidemiological pattern of dengue

scientific article published on 15 April 2009

Inferring malaria parasite population structure from serological networks.

scientific article

Influenza outbreaks.

scientific article

Inverse associations of human leukocyte antigen and malaria parasite types in two West African populations

scientific article published on February 2005

Larger mammalian body size leads to lower retroviral activity

scientific article

Lineage structure of Streptococcus pneumoniae is driven by immune selection on the groEL heat-shock protein

article published in 2016

Lineage structure of Streptococcus pneumoniae may be driven by immune selection on the groEL heat-shock protein

scientific article published on 22 August 2017

Long-term evolution of antigen repertoires among carried meningococci

scientific article published on 3 February 2010

MANTIS: an R package that simulates multilocus models of pathogen evolution

scientific article published on 28 May 2015

Mastering malaria: what helps and what hurts

scientific article

Memories of Rain

novel by Sunetra Gupta

Metabolic competition as a driver of bacterial population structure

scientific article published on 23 September 2016

Modeling Combinations of Pre-erythrocytic Plasmodium falciparum Malaria Vaccines

scientific article

Modelling challenges in context: lessons from malaria, HIV, and tuberculosis

scientific article published on 16 February 2015

Modelling malaria population structure and its implications for control.

scientific article published on January 2010

Modelling the effects of combining pre-erythrocytic vaccines against Plasmodium falciparum

scientific article published on 22 September 2014

Negative epistasis between the malaria-protective effects of alpha+-thalassemia and the sickle cell trait

scientific article

Negative epistasis between α+ thalassaemia and sickle cell trait can explain interpopulation variation in South Asia

scientific article published on 11 August 2011

Networks of sexual contacts

article

Neutralising antibodies to SARS coronavirus 2 in Scottish blood donors - a pilot study of the value of serology to determine population exposure

scientific article published on 17 April 2020

Observed and expected frequencies of structural hemoglobin variants in newborn screening surveys in Africa and the Middle East: deviations from Hardy-Weinberg equilibrium

scientific article

Parasite immune escape: new views into host-parasite interactions

scientific article

Parasitic castration promotes coevolutionary cycling but also imposes a cost on sex.

scientific article published on 22 May 2014

Pathogen selection drives nonoverlapping associations between HLA loci

scientific article

Quantifying the contribution of Plasmodium falciparum malaria to febrile illness amongst African children.

scientific article published on 16 October 2017

Reducing HIV infection in people who inject drugs is impossible without targeting recently-infected subjects.

scientific article

Reply

Reproduction, infection and killer-cell immunoglobulin-like receptor haplotype evolution

scientific article published on 12 August 2016

Reverse immunodynamics: a new method for identifying targets of protective immunity

scientific article published in Scientific Reports

Reverse immunodynamics: a new method to identifying targets of protective immunity

Role of selection in the emergence of lineages and the evolution of virulence in Neisseria meningitidis

scholarly article

Role of stochastic processes in maintaining discrete strain structure in antigenically diverse pathogen populations

scientific article

SARS-CoV-2 antibody prevalence, titres and neutralising activity in an antenatal cohort, United Kingdom, 14 April to 15 June 2020

scientific article published on 01 October 2020

Sexually transmitted infections in polygamous mating systems ⬇️

scientific article published on January 21, 2013

Shifting patterns of dengue three years after Zika virus emergence in Brazil

Sickle haemoglobin, haemoglobin C and malaria mortality feedbacks

scientific article

Some considerations concerning the challenge of incorporating social variables into epidemiological models of infectious disease transmission

scientific article

Spatial structure mitigates fitness costs in host-parasite coevolution

scientific article published on 15 January 2014

Stability and bifurcations in a model of antigenic variation in malaria

scientific article published on 31 July 2008

The antigenic evolution of influenza: drift or thrift?

scientific article published on 4 February 2013

The effect of immune selection on the structure of the meningococcal opa protein repertoire

scientific article

The effects of host contact network structure on pathogen diversity and strain structure

scholarly article

The effects of tertiary and quaternary infections on the epidemiology of dengue

scientific article

The emergence and maintenance of sickle cell hotspots in the Mediterranean

scientific article

The generation of influenza outbreaks by a network of host immune responses against a limited set of antigenic types

scientific article

The roles of competition and mutation in shaping antigenic and genetic diversity in influenza

scientific article

The spatial epidemiology of sickle-cell anaemia in India

scientific article published in Scientific Reports

Transient cross-reactive immune responses can orchestrate antigenic variation in malaria

scientific article

Understanding the contrasting spatial haplotype patterns of malaria-protective β-globin polymorphisms

scientific article published on 19 September 2015

Understanding the haplotypic diversity and distribution of malaria-protective β-globin mutations

scientific article

Vaccination Drives Changes in Metabolic and Virulence Profiles of Streptococcus pneumoniae

scientific article published on 16 July 2015

Vaccination can drive an increase in frequencies of antibiotic resistance among nonvaccine serotypes of Streptococcus pneumoniae

scientific article published on 6 March 2018

When silence is not a true option

scientific article published in Nature

List of works by Sunetra Gupta

A model for pathogen population structure with cross-protection depending on the extent of overlap in antigenic variant repertoires.

A multi-country study of dengue vaccination strategies with Dengvaxia and a future vaccine candidate in three dengue-endemic countries: Vietnam, Thailand, and Colombia

A naturally protective epitope of limited variability as an influenza vaccine target

A potent neutralizing epitope of limited variability in the head domain of haemagglutinin as a novel influenza vaccine target

Acquisition of Streptococcus pneumoniae and Nonspecific Morbidity in Infants and Their Families

Analysis of HIV-1 envelope evolution suggests antibody-mediated selection of common epitopes among Chinese former plasma donors from a narrow-source outbreak

Antigenic variation in Plasmodium falciparum malaria involves a highly structured switching pattern

Assessing the burden of pregnancy-associated malaria under changing transmission settings

Capsular serotype-specific attack rates and duration of carriage of Streptococcus pneumoniae in a population of children

Challenges in dengue research: A computational perspective.

Competing species leave many potential niches unfilled.

Contact between bird species of different lifespans can promote the emergence of highly pathogenic avian influenza strains

Contrasting within- and between-host immune selection shapes Neisseria Opa repertoires

Correction: Quantifying the contribution of Plasmodium falciparum malaria to febrile illness amongst African children.

Detecting signatures of past pathogen selection on human HLA loci: are there needles in the haystack?

Detection of neutralising antibodies to SARS-CoV-2 to determine population exposure in Scottish blood donors between March and May 2020

Effects of epistasis on infectivity range during host-parasite coevolution

Effects of neutralizing antibodies on escape from CD8+ T-cell responses in HIV-1 infection

Epistasis and the sensitivity of phenotypic screens for beta thalassaemia

Epistasis and the sensitivity of phenotypic screens for beta thalassaemia.

Epistatic interactions between genetic disorders of hemoglobin can explain why the sickle-cell gene is uncommon in the Mediterranean

Erratum: Observed and expected frequencies of structural hemoglobin variants in newborn screening surveys in Africa and the Middle East: deviations from Hardy-Weinberg equilibrium

Estimating the burden of α-thalassaemia in Thailand using a comprehensive prevalence database for Southeast Asia

Estimating the burden of α-thalassaemia in Thailand using a comprehensive prevalence database for Southeast Asia

Evolution and immunology of infectious diseases: what’s new?

Evolution of virulence in malaria

Five challenges in modelling interacting strain dynamics

Fundamental principles of epidemic spread highlight the immediate need for large-scale serological surveys to assess the stage of the SARS-CoV-2 epidemic

Genome-wide association studies in Plasmodium species

Global burden of sickle cell anaemia in children under five, 2010-2050: modelling based on demographics, excess mortality, and interventions

Global migration and the changing distribution of sickle haemoglobin: a quantitative study of temporal trends between 1960 and 2000.

Great Barrington Declaration ⬇️

HBV vaccination and PMTCT as elimination tools in the presence of HIV: insights from a clinical cohort and dynamic model

HBV vaccination and PMTCT as elimination tools in the presence of HIV: insights from a clinical cohort and dynamic model

Hepatitis B virus seroepidemiology data for Africa: Modelling intervention strategies based on a systematic review and meta-analysis

High residual carriage of vaccine-serotype Streptococcus pneumoniae after introduction of pneumococcal conjugate vaccine in Malawi

High residual prevalence of vaccine serotype Streptococcus pneumoniae carriage 4 to 6 years after introduction of 13-valent pneumococcal conjugate vaccine in Malawi: a prospective serial cross-sectional study

Host community structure and the maintenance of pathogen diversity.

How has publishing changed in the last twenty years?

Identifying Streptococcus pneumoniae genes associated with invasive disease using pangenome-based whole genome sequence typing

Identifying genes associated with invasive disease in S. pneumoniae by applying a machine learning approach to whole genome sequence typing data

Immunological serotype interactions and their effect on the epidemiological pattern of dengue

Inferring malaria parasite population structure from serological networks.

Influenza outbreaks.

Inverse associations of human leukocyte antigen and malaria parasite types in two West African populations

Larger mammalian body size leads to lower retroviral activity

Lineage structure of Streptococcus pneumoniae is driven by immune selection on the groEL heat-shock protein

Lineage structure of Streptococcus pneumoniae may be driven by immune selection on the groEL heat-shock protein

Long-term evolution of antigen repertoires among carried meningococci

MANTIS: an R package that simulates multilocus models of pathogen evolution

Mastering malaria: what helps and what hurts

Memories of Rain

Metabolic competition as a driver of bacterial population structure

Modeling Combinations of Pre-erythrocytic Plasmodium falciparum Malaria Vaccines

Modelling challenges in context: lessons from malaria, HIV, and tuberculosis

Modelling malaria population structure and its implications for control.

Modelling the effects of combining pre-erythrocytic vaccines against Plasmodium falciparum

Negative epistasis between the malaria-protective effects of alpha+-thalassemia and the sickle cell trait

Negative epistasis between α+ thalassaemia and sickle cell trait can explain interpopulation variation in South Asia

Networks of sexual contacts

Neutralising antibodies to SARS coronavirus 2 in Scottish blood donors - a pilot study of the value of serology to determine population exposure

Observed and expected frequencies of structural hemoglobin variants in newborn screening surveys in Africa and the Middle East: deviations from Hardy-Weinberg equilibrium

Parasite immune escape: new views into host-parasite interactions

Parasitic castration promotes coevolutionary cycling but also imposes a cost on sex.

Pathogen selection drives nonoverlapping associations between HLA loci

Quantifying the contribution of Plasmodium falciparum malaria to febrile illness amongst African children.

Reducing HIV infection in people who inject drugs is impossible without targeting recently-infected subjects.

Reply

Reproduction, infection and killer-cell immunoglobulin-like receptor haplotype evolution

Reverse immunodynamics: a new method for identifying targets of protective immunity

Reverse immunodynamics: a new method to identifying targets of protective immunity

Role of selection in the emergence of lineages and the evolution of virulence in Neisseria meningitidis

Role of stochastic processes in maintaining discrete strain structure in antigenically diverse pathogen populations

SARS-CoV-2 antibody prevalence, titres and neutralising activity in an antenatal cohort, United Kingdom, 14 April to 15 June 2020

Sexually transmitted infections in polygamous mating systems ⬇️

Shifting patterns of dengue three years after Zika virus emergence in Brazil

Sickle haemoglobin, haemoglobin C and malaria mortality feedbacks

Some considerations concerning the challenge of incorporating social variables into epidemiological models of infectious disease transmission

Spatial structure mitigates fitness costs in host-parasite coevolution