Harnessing genomics and genome biology to understand malaria biology

Using CF11 cellulose columns to inexpensively and effectively remove human DNA from Plasmodium falciparum-infected whole blood samples

(2012) Meera Venkatesan et al.   MALARIA JOURNAL

A Chemical Genomic Analysis of Decoquinate, aPlasmodium falciparumCytochromebInhibitor

(2011) Tae-gyu Nam et al.   ACS Chemical Biology

Noncoding RNA, antigenic variation, and the virulence genes of Plasmodium falciparum

(2011) A Taylor Bright et al.   BMC BIOLOGY

Artemisinin resistance in Plasmodium falciparum is associated with an altered temporal pattern of transcription

(2011) Sachel Mok et al.   BMC GENOMICS

Malaria Parasite clag3 Genes Determine Channel-Mediated Nutrient Uptake by Infected Red Blood Cells

(2011) Wang Nguitragool et al.   CELL

Target identification and validation of novel antimalarials

(2011) Case McNamara et al.   Future Microbiology

Malaria morbidity and pyrethroid resistance after the introduction of insecticide-treated bednets and artemisinin-based combination therapies: a longitudinal study

(2011) Jean-François Trape et al.   LANCET INFECTIOUS DISEASES

Joint analysis of demography and selection in population genetics: where do we stand and where could we go?

(2011) JUNRUI LI et al.   MOLECULAR ECOLOGY

Genetic linkage analyses redefine the roles of PfCRT and PfMDR1 in drug accumulation and susceptibility in Plasmodium falciparum

(2011) Cecilia P. Sanchez et al.   MOLECULAR MICROBIOLOGY

First Results of Phase 3 Trial of RTS,S/AS01 Malaria Vaccine in African Children

(2011)   NEW ENGLAND JOURNAL OF MEDICINE

A Field Trial to Assess a Blood-Stage Malaria Vaccine

(2011) Mahamadou A. Thera et al.   NEW ENGLAND JOURNAL OF MEDICINE

South American Plasmodium falciparum after the Malaria Eradication Era: Clonal Population Expansion and Survival of the Fittest Hybrids

(2011) Sean M. Griffing et al.   PLoS One

Validation of isoleucine utilization targets in Plasmodium falciparum

(2011) E. S. Istvan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chemical Genomic Profiling for Antimalarial Therapies, Response Signatures, and Molecular Targets

(2011) J. Yuan et al.   SCIENCE

Imaging of Plasmodium Liver Stages to Drive Next-Generation Antimalarial Drug Discovery

(2011) S. Meister et al.   SCIENCE

Identification and Functional Validation of the Novel Antimalarial Resistance Locus PF10_0355 in Plasmodium falciparum

(2011) Daria Van Tyne et al.   PLoS Genetics

A Research Agenda to Underpin Malaria Eradication

(2011) Pedro L. Alonso et al.   PLOS MEDICINE

A global transcriptional analysis of Plasmodium falciparum malaria reveals a novel family of telomere-associated lncRNAs

(2011) Kate M Broadbent et al.   GENOME BIOLOGY

Hybrid selection for sequencing pathogen genomes from clinical samples

(2011) Alexandre Melnikov et al.   GENOME BIOLOGY

High recombination rates and hotspots in a Plasmodium falciparum genetic cross

(2011) Hongying Jiang et al.   GENOME BIOLOGY

ROADTRIPS: Case-Control Association Testing with Partially or Completely Unknown Population and Pedigree Structure

(2010) Timothy Thornton et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Chromatin-Mediated Epigenetic Regulation in the Malaria Parasite Plasmodium falciparum

(2010) Liwang Cui et al.   EUKARYOTIC CELL

Genome scanning of Amazonian Plasmodium falciparum shows subtelomeric instability and clindamycin-resistant parasites

(2010) N. V. Dharia et al.   GENOME RESEARCH

High Heritability of Malaria Parasite Clearance Rate Indicates a Genetic Basis for Artemisinin Resistance in Western Cambodia

(2010) Tim J. C. Anderson et al.   JOURNAL OF INFECTIOUS DISEASES

Return of Chloroquine‐Susceptible Falciparum Malaria in Malawi Was a Reexpansion of Diverse Susceptible Parasites

(2010) Miriam K. Laufer et al.   JOURNAL OF INFECTIOUS DISEASES

Allele Frequency-Based and Polymorphism-Versus-Divergence Indices of Balancing Selection in a New Filtered Set of Polymorphic Genes in Plasmodium falciparum

(2010) L. I. Ochola et al.   MOLECULAR BIOLOGY AND EVOLUTION

New insights into the blood-stage transcriptome ofPlasmodium falciparumusing RNA-Seq

(2010) Thomas D. Otto et al.   MOLECULAR MICROBIOLOGY

Branched tricarboxylic acid metabolism in Plasmodium falciparum

(2010) Kellen L. Olszewski et al.   NATURE

Origin of the human malaria parasite Plasmodium falciparum in gorillas

(2010) Weimin Liu et al.   NATURE

Plasmodium falciparum genome-wide scans for positive selection, recombination hot spots and resistance to antimalarial drugs

(2010) Jianbing Mu et al.   NATURE GENETICS

Variance component model to account for sample structure in genome-wide association studies

(2010) Hyun Min Kang et al.   NATURE GENETICS

New approaches to population stratification in genome-wide association studies

(2010) Alkes L. Price et al.   NATURE REVIEWS GENETICS

Exploring metabolomic approaches to analyse phospholipid biosynthetic pathways in Plasmodium

(2010) S. BESTEIRO et al.   PARASITOLOGY

How can we identify parasite genes that underlie antimalarial drug resistance?

(2010) Tim Anderson et al.   PHARMACOGENOMICS

Multiethnic Genetic Association Studies Improve Power for Locus Discovery

(2010) Sara L. Pulit et al.   PLoS One

Whole-genome sequencing and microarray analysis of ex vivo Plasmodium vivax reveal selective pressure on putative drug resistance genes

(2010) N. V. Dharia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Exposing malaria in-host diversity and estimating population diversity by capture-recapture using massively parallel pyrosequencing

(2010) J. J. Juliano et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inferred relatedness and heritability in malaria parasites

(2010) T. J. C. Anderson et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A Plant-Like Kinase in Plasmodium falciparum Regulates Parasite Egress from Erythrocytes

(2010) J. D. Dvorin et al.   SCIENCE

Spiroindolones, a Potent Compound Class for the Treatment of Malaria

(2010) M. Rottmann et al.   SCIENCE

Detecting signatures of balancing selection to identify targets of anti-parasite immunity

(2010) Gareth D. Weedall et al.   TRENDS IN PARASITOLOGY

A Systems-Based Analysis of Plasmodium vivax Lifecycle Transcription from Human to Mosquito

(2010) Scott J. Westenberger et al.   PLoS Neglected Tropical Diseases

Gene copy number variation throughout the Plasmodium falciparum genome

(2009) Ian H Cheeseman et al.   BMC GENOMICS

Host-Parasite Interactions Revealed by Plasmodium falciparum Metabolomics

(2009) Kellen L. Olszewski et al.   Cell Host & Microbe

Optimizing comparative genomic hybridization probes for genotyping and SNP detection in Plasmodium falciparum

(2009) John C. Tan et al.   GENOMICS

Genetic diversity and population structure of Plasmodium falciparum in Thailand, a low transmission country

(2009) Tepanata Pumpaibool et al.   MALARIA JOURNAL

Probing the multifactorial basis of Plasmodium falciparum quinine resistance: Evidence for a strain-specific contribution of the sodium-proton exchanger PfNHE

(2009) Louis J. Nkrumah et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

A global view of the nonprotein-coding transcriptome in Plasmodium falciparum

(2009) Carsten A. Raabe et al.   NUCLEIC ACIDS RESEARCH

Impact of RTS,S/AS02A and RTS,S/AS01B on Genotypes of P. falciparum in Adults Participating in a Malaria Vaccine Clinical Trial

(2009) John N. Waitumbi et al.   PLoS One

Statistical estimation of cell-cycle progression and lineage commitment in Plasmodium falciparum reveals a homogeneous pattern of transcription in ex vivo culture

(2009) J. E. Lemieux et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Geographic patterns ofPlasmodium falciparumdrug resistance distinguished by differential responses to amodiaquine and chloroquine

(2009) Juliana Martha Sá et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A comprehensive Plasmodium falciparum protein interaction map reveals a distinct architecture of a core interactome

(2009) Stefan Wuchty et al.   PROTEOMICS

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

Comparative Transcriptional and Genomic Analysis of Plasmodium falciparum Field Isolates

(2009) Margaret J. Mackinnon et al.   PLoS Pathogens

Reality check for malaria proteomics

(2009) Robert E Sinden   GENOME BIOLOGY

Use of high-density tiling microarrays to identify mutations globally and elucidate mechanisms of drug resistance in Plasmodium falciparum

(2009) Neekesh V Dharia et al.   GENOME BIOLOGY

Detection of genome-wide polymorphisms in the AT-rich Plasmodium falciparum genome using a high-density microarray

(2008) Hongying Jiang et al.   BMC GENOMICS

Erythrocyte Binding Protein PfRH5 Polymorphisms Determine Species-Specific Pathways of Plasmodium falciparum Invasion

(2008) Karen Hayton et al.   Cell Host & Microbe

Transcriptional control and gene silencing inPlasmodium falciparum

(2008) Bradley I. Coleman et al.   CELLULAR MICROBIOLOGY

Drug resistance and genetic mapping in Plasmodium falciparum

(2008) Karen Hayton et al.   CURRENT GENETICS

Efficient Control of Population Structure in Model Organism Association Mapping

(2008) H. M. Kang et al.   GENETICS

Complexity ofPlasmodium falciparumClinical Samples from Uganda during Short‐Term Culture

(2008) Samuel L. Nsobya et al.   JOURNAL OF INFECTIOUS DISEASES

A general SNP-based molecular barcode for Plasmodium falciparum identification and tracking

(2008) Rachel Daniels et al.   MALARIA JOURNAL

Control of gene expression in Plasmodium falciparum – Ten years on

(2008) Paul Horrocks et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Comparative genomics of the neglected human malaria parasite Plasmodium vivax

(2008) Jane M. Carlton et al.   NATURE

Metabolite profiling of the intraerythrocytic malaria parasitePlasmodium falciparumby1H NMR spectroscopy

(2008) Rongwei Teng et al.   NMR IN BIOMEDICINE

Deciphering the Ubiquitin-Mediated Pathway in Apicomplexan Parasites: A Potential Strategy to Interfere with Parasite Virulence

(2008) Nadia Ponts et al.   PLoS One

Specific DNA-binding by Apicomplexan AP2 transcription factors

(2008) E. K. De Silva et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Proteomic analysis of zygote and ookinete stages of the avian malaria parasite Plasmodium gallinaceum delineates the homologous proteomes of the lethal human malaria parasite Plasmodium falciparum

(2008) Kailash P. Patra et al.   PROTEOMICS

Genetic Mapping in Human Disease

(2008) D. Altshuler et al.   SCIENCE

Adaptive Copy Number Evolution in Malaria Parasites

(2008) Shalini Nair et al.   PLoS Genetics

Proteomic Profiling of Plasmodium Sporozoite Maturation Identifies New Proteins Essential for Parasite Development and Infectivity

(2008) Edwin Lasonder et al.   PLoS Pathogens

Quantitative protein expression profiling reveals extensive post-transcriptional regulation and post-translational modifications in schizont-stage malaria parasites

(2008) Bernardo J Foth et al.   GENOME BIOLOGY

Comparative genomics of transcription factors and chromatin proteins in parasitic protists and other eukaryotes

(2007) Lakshminarayan M. Iyer et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY