Consortial Project 3

 

 

 

Started 2005

Consortial Project 3 is using whole genome sequencing to identify genetic diversity in genes known to be associated with resistance to severe malaria, within and across malaria-endemic populations.

Objectives & Coordination

Human genome diversity in malaria-endemic regions

Our primary objective is to characterise genetic diversity in genes known to be associated with malaria.

To date, this work has involved:

  • Establishing a framework for sample collection and data-sharing for genotyping and whole genome sequencing
  • Capillary sequencing on exonic regions of the HBA, HBB, G6PD, and SLC4A1 gene regions in eight of the populations sampled
  • Preparing all the CP3 samples for whole genome amplification
  • Working to define a reliable methodology for multi-centre genome-wide association studies (GWAS) in Africa

Governance

This project began shortly after MalariaGEN was formed in 2005, and has greatly influenced our approach to collaborative science.

MalariaGEN Consortial Projects 1-4 are overseen by a Governance Committee.

The Publications and Presentations Committee (PPC) helps ensure that publications and presentations arising from our human consortial projects meet the criteria outlined in the Joint Policy of Data Sharing, Intellectual Property and Publications.

Sampling locations

Samples were collected from 2,217 individuals through a number of community-based studies.

  • Burkina Faso (BF)
  • Cameroon (CM)
  • Kenya (KE)
  • Ghana (GH)
  • Papua New Guinea (PG)
  • Tanzania (TZ)
  • The Gambia (GM)
  • Vietnam (VN)

Data

Data for the CP3 project is being added as it becomes available. Some data used in this project is available through the 1000 Genomes FTP site and the European Nucleotide Archive.

Current

15 Aug 2019

Whole genome sequencing of six ethnic groups from Burkina Faso, Cameroon, and Tanzania

Whole genome sequence data on 374 individuals from six ethic groups from 3 countries.

This data is subject to
Human GWAS data
19 Jul 2019

Gambian Genome Variation Project - Open Access Data

Low coverage sequencing of the Fula, Jola, Mandinka and Woloff from Gambia Western Division.

This data is
Open access

People

Investigators involved in Consortial Project 3 include:

Dr Alphaxard Manjurano

London School of Hygiene & Tropical Medicine, UK

Dr Carolyne Ndila

KEMRI Wellcome Trust Research Programme, Kenya

Prof Chris Drakeley

Professor
London School of Hygiene and Tropical Medicine, UK

Prof David Conway

London School of Hygiene and Tropical Medicine, UK

Prof David Modiano

Sapienza University of Rome, Italy

Dr Edith Bougouma

Centre National de Recherche et de Formation sur le Paludisme (CNRFP), Burkina Faso

Prof Eleanor Riley

London School of Hygiene & Tropical Medicine, UK

Prof Eric Akum Achidi

University of Buea, Cameroon

Prof Gilbert Kokwaro

University of Nairobi, Kenya

Dr Giorgio Sirugo

Head, Genetics Center
Ospedale San Pietro Fatebenefratelli, Rome, Italy
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Hugh Reyburn

London School of Hygiene & Tropical Medicine, UK

Prof Ivo Mueller

Barcelona Centre for International Health Research, Spain
Walter and Eliza Hall Institute, Australia

Dr Julie Makani

Senior Lecturer
Muhimbili University of Health and Allied Sciences, Tanzania
Research Fellow in Tropical Medicine
University of Oxford, UK
Intermediate Fellow
Wellcome Trust, UK
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Dr Kalifa Abubakr Bojang

Medical Research Council Unit, The Gambia

Prof Kevin Marsh

Professor of Tropical Medicine
Nuffield Department of Medicine, University of Oxford, UK
Senior Advisor
African Academy of Sciences, Kenya
Institutional profile
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Prof Kwadwo Koram

University of Ghana, Legon, Ghana

Dr Laurens Manning

Associate Professor
University of Western Australia
Infectious Diseases Physician
Department of Infectious Diseases, Fiona Stanley Hospital
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Dr Lucas Amenga-Etego

West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), University of Ghana, Accra, Ghana
Navrongo Health Research Centre, Ghana Health Service, Navrongo, Ghana

Prof Michael Wilson

Nogouchi Memorial Institute for Medical Research, Legon-Accra, Ghana

Dr Muminatou Jallow

MRC Laboratories, The Gambia

Nguyen Thi Ngoc Quyen

Oxford University Clinical Research Unit (OUCRU), Vietnam

Dr Norbert Peshu

KEMRI Wellcome Trust Research Programme, Kenya

Assoc Prof Pascal Michon

FMHS Research Coordinator
Faculty of Medicine & Health Sciences, Divine Word University, Madang, PNG
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Dr Sarah Dunstan

Senior Research Fellow
The University of Melbourne, Australia
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Dr Sodiomon Bienvenu Sirima

Executive Director
Centre National de Recherche et de Formation sur le Paludisme (CNRFP), Burkina Faso
Scientific Team Leader
Groupe de Recherche Action en Sante (GRAS) Burkina Faso
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Dr Tobias Apinjoh

Biochemist and Researcher
University of Buea, Cameroon
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Prof Tom Williams

Head of the Department of Epidemiology and Demography
KEMRI Wellcome Trust Research Programme, Kenya
Chair in Haemoglobinopathy Reseach
Imperial College London, UK
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Prof Tran Tinh Hien

Director of Clinical Research
Oxford University Clinical Research Unit (OUCRU), Vietnam
Professor of Tropical Medicine, Group Head / PI
Centre for Tropical Medicine and Global Health, University of Oxford, UK
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Dr Valentina Mangano

Research Fellow
Sapienza University of Rome, Italy
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