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 severa 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 & 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
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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
University of Ghana, West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), 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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