Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum
NIAID - National Institute of Allergy and Infectious Diseases
About This Grant
PROPOSAL SUMMARY Malaria remains a major global health burden. One malaria species, Plasmodium falciparum, is responsible for the vast majority of malaria morbidity and mortality, particularly in Africa, where resistance to frontline antimalarials are emerging. Copy number variation (CNV) is a key but understudied source of genetic variation in P. falciparum, influencing gene expression, drug resistance, and parasite fitness. While some drug resistance-associated CN variants have been described in Southeast Asian (SEA) populations, including in key drug resistance genes multi-drug resistance 1 (mdr1) and plasmepsin II/III, there is an unmet need to understand the prevalence of P. falciparum CNV globally and particularly in Africa. This project aims to support the career development of an MD-PhD student as he applies computational approaches to identify CNVs in African P. falciparum populations across the range of sequencing methods applied in malaria molecular surveillance (MMS), from targeted to whole-genome sequencing (WGS). This proposal will improve a prototype statistical method for P. falciparum CNV detection in WGS data, and apply this method to thousands of publicly available samples to develop a global catalog of CNV across malaria populations (aim 1). This will be followed by development of novel Bayesian hierarchical methods for quantification of CNV in molecular inversion probe (MIP) sequencing, and application of this method to samples from across Africa to describe the spread of both novel and previously described CNV across a range of parasite population structures (aim 2). By elucidating the role of CNVs in malaria drug resistance evolution, this project aligns with broader scientific and public health efforts to combat resistance towards malaria elimination. This interdisciplinary network will allow for scientific gains in the understanding of copy number variants in P. falciparum and the selective forces acting on them. In addition, the student’s diverse set of scientific and clinical mentors in an academically rigorous computational biology department and medical school will support his training at the intersection of genomics, population genetics, and infectious disease research. This fellowship will prepare the trainee for a promising career as a physician-scientist pathologist exploring the population genetics of drug resistance in parasites and other diseases of their human hosts.
Grant Summary
Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum is a NIAID - National Institute of Allergy and Infectious Diseases grant providing up to $55K for university, nonprofit, healthcare org. Applications are due 2031-05-31 (open). Check eligibility and apply with FindGrants.
Focus Areas
Eligibility
How to Apply
Up to $55K
2031-05-31
- 1Confirm your organization is eligible for Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum from NIAID - National Institute of Allergy and Infectious Diseases, checking organization type, location, and any population or project requirements.
- 2Gather the required documents and information, including your organization details, project plan, and budget figures.
- 3Draft your application narrative and budget addressing the funder's priorities and review criteria. FindGrants can draft each section for you to review and edit.
- 4Review every section against the requirements checklist, then export a submission-ready application pack and submit it to NIAID - National Institute of Allergy and Infectious Diseases before the deadline.
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Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum: Frequently Asked Questions
Who is eligible for the Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum?
Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum is offered by NIAID - National Institute of Allergy and Infectious Diseases and is generally open to university, nonprofit, healthcare org. It is open to organizations nationwide unless the funder specifies otherwise. Review the specific eligibility terms before applying, since funders set their own requirements around organization type, location, and the population or project being served.
How much funding does the Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum provide?
Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum provides up to $55K per award from NIAID - National Institute of Allergy and Infectious Diseases. Actual award sizes depend on the scope of your project, available program funds, and the number of applicants, so build a budget that reflects realistic, allowable costs rather than the maximum figure.
When is the Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum deadline?
Applications for Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum are due 2031-05-31 (open). Because deadlines can change, verify the date with the funder, NIAID - National Institute of Allergy and Infectious Diseases, and give yourself enough time to prepare a complete, competitive application before the close date.
How do you apply for the Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum?
To apply for Improving computational detection and genotyping of copy number variants in small complex genomes: application to high-throughput sequencing in the parasite Plasmodium falciparum, confirm your eligibility, gather the required documents, and prepare a narrative and budget that address the funder's priorities. FindGrants guides you step by step and can draft each section, then exports a submission-ready application pack for this grant from NIAID - National Institute of Allergy and Infectious Diseases.