Pf-HaploAtlas

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We tackle some of the most difficult challenges in genomic research. This demands science at scale; a visionary and creative approach to research that pushes the boundaries of our understanding in ever new and exciting ways.
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  The Wellcome Sanger Institute is a world leader in genome research that delivers insights into human and pathogen biology that change science and medicine.
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  Join our community of world class thinkers and professionals at the Sanger Institute located in Cambridge. Together we achieve life-changing science.
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  We are committed to training the next generation of pioneering genome scientists and clinicians At the Wellome Sanger Institute, near Cambridge, we give students all the tools they need to succeed in the field of genomics research.
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  Women are represented in diminishing proportions as career levels progress and significant numbers of women leave science altogether. Scientists from marginalised groups such as LGBT+, BME and disabled scientists also do not achieve success at the same rates as their counterparts. With partners on the Wellcome Genome Campus we explore these issues, look to inspire researchers, develop discussion and drive change in current practices and policy.
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Our science is organised into six Scientific Programmes, each defining a major area of research with a particular biological, disease or analytic focus. In all cases, the studies provide insights into human, pathogen, cellular evolution, the phenotypic and hence biological consequences of genome variation and the processes which cause mutations.
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  Throughout the COVID-19 lockdown of 2020-2021 we hosted a series of monthly freely available and open virtual seminars, showcasing how our researchers are tackling some of the greatest challenges in human health and disease. From using genomic approaches to map all cell types in the human body, understand how cancer develops, and track the evolution and spread of global diseases, our senior scientists and faculty presented the latest developments in their field.
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Almost 1,000 scientists, developers, engineers and skilled professionals work together to deliver the Sanger Institute’s cutting-edge genomic research.
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  Our science is organised into five Scientific Programmes, each defining a major area of research with a particular biological, disease or analytic focus. In all cases, the studies provide insights into human, pathogen, cellular evolution, the phenotypic and hence biological consequences of genome variation and the processes which cause mutations.
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  Our science is organised into five Scientific Programmes, each defining a major area of research with a particular biological, disease or analytic focus. In all cases, the studies provide insights into human, pathogen, cellular evolution, the phenotypic and hence biological consequences of genome variation and the processes which cause mutations.
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Pf-HaploAtlas

The Plasmodium falciparum Haplotype Atlas allows anyone with an internet connection to study and track genetic variation in any gene in the P. falciparum genome

Try Pf-HaploAtlas

The Pf-HaploAtlas app allows you to explore and interpret malaria genomic data.

This app provides visualisations of haplotypes for all 5,102 core genes of malaria parasite Plasmodium falciparum by using data from 16,203 samples, from 33 countries, and spread between the years 1984 and 2018. It facilitates comprehensive spatial and temporal analyses of genes and variants of interest.

How to use the app

Learn to use the Pf-HaploAtlas with this demonstration, created by the app’s developers.

Further information

Data Use Statement

When publishing work that uses data and/or plots from the Pf-HaploAtlas, please cite the following:

Lee C, Ünlü ES, White NFD, Almagro-Garcia J, Ariani C, Pearson RD. Pf-HaploAtlas: An interactive web app for spatiotemporal analysis of P. falciparum genes. BioRxiv 603783 [Preprint] July 16, 2024. Available from: https://doi.org/10.1101/2024.07.16.603783.

Sanger Institute Contributors

Photo of Dr Jacob Almagro-Garcia

Dr Jacob Almagro-Garcia

Translational Research Lead

Photo of Dr Cristina Ariani

Dr Cristina Ariani

Malaria Parasite Surveillance Lead

Photo of Chiyun Lee

Chiyun Lee

Senior Data Scientist

Photo of Dr Richard Pearson

Dr Richard Pearson

Parasite Data Lead

Photo of Dr Eyyub Unlu

Dr Eyyub Unlu

Data Scientist

Photo of Dr Nina White

Dr Nina White

Senior Data Scientist

Related groups

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Malaria Parasite Genomic Surveillance

Genomic Surveillance Unit

We generate and curate genomic public health data on the parasites that cause malaria. We also develop new scientific and bioinformatic ...

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Publications

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Genomic Surveillance Unit

The Genomic Surveillance Unit (GSU) improves global human health by accelerating the use and impact of genomic surveillance. We deliver products, ...

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MalariaGEN (Malaria Genomic Epidemiology Network)

MalariaGEN is a data-sharing community that creates genetic data resources to support the control and elimination of malaria.