{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,14]],"date-time":"2026-10-14T03:51:54Z","timestamp":1791949914738,"version":"4.3.4"},"reference-count":103,"publisher":"eLife Sciences Publications, Ltd","license":[{"start":{"date-parts":[[2022,1,10]],"date-time":"2022-01-10T00:00:00Z","timestamp":1641772800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2022,1,10]],"date-time":"2022-01-10T00:00:00Z","timestamp":1641772800000},"content-version":"am","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2022,1,10]],"date-time":"2022-01-10T00:00:00Z","timestamp":1641772800000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000761","name":"Imperial College London","doi-asserted-by":"publisher","award":["Imperial College-Wellcome Trust Institutional Strategic Support Fund"],"award-info":[{"award-number":["Imperial College-Wellcome Trust Institutional Strategic Support Fund"]}],"id":[{"id":"10.13039\/501100000761","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000761","name":"Imperial College London","doi-asserted-by":"publisher","award":["Imperial College Dean's EPSRC Studentship"],"award-info":[{"award-number":["Imperial College Dean's EPSRC Studentship"]}],"id":[{"id":"10.13039\/501100000761","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002992","name":"UK Department for International Development, and European Union EDCTP2 program","doi-asserted-by":"publisher","award":["MR\/L006529\/1"],"award-info":[{"award-number":["MR\/L006529\/1"]}],"id":[{"id":"10.13039\/501100002992","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100004440","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["206508\/Z\/17\/Z"],"award-info":[{"award-number":["206508\/Z\/17\/Z"]}],"id":[{"id":"10.13039\/100004440","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elifesciences.org"],"crossmark-restriction":false},"short-container-title":[],"accepted":{"date-parts":[[2021,12,22]]},"abstract":"<jats:p>\n                    Recent initiatives to improve translation of findings from animal models to human disease have focussed on reproducibility but quantifying the relevance of animal models remains a challenge. Here, we use comparative transcriptomics of blood to evaluate the systemic host response and its concordance between humans with different clinical manifestations of malaria and five commonly used mouse models.\n                    <jats:italic>Plasmodium yoelii<\/jats:italic>\n                    17XL infection of mice most closely reproduces the profile of gene expression changes seen in the major human severe malaria syndromes, accompanied by high parasite biomass, severe anemia, hyperlactatemia, and cerebral microvascular pathology. However, there is also considerable discordance of changes in gene expression between the different host species and across all models, indicating that the relevance of biological mechanisms of interest in each model should be assessed before conducting experiments. These data will aid the selection of appropriate models for translational malaria research, and the approach is generalizable to other disease models.\n                  <\/jats:p>","DOI":"10.7554\/elife.70763","type":"journal-article","created":{"date-parts":[[2021,12,23]],"date-time":"2021-12-23T09:16:01Z","timestamp":1640250961000},"update-policy":"https:\/\/doi.org\/10.7554\/elife.70763","source":"Crossref","is-referenced-by-count":19,"title":["Comparative transcriptomic analysis reveals translationally relevant processes in mouse models of malaria"],"prefix":"10.7554","volume":"11","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0440-9335","authenticated-orcid":true,"given":"Athina","family":"Georgiadou","sequence":"first","affiliation":[{"name":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","place":["London, United Kingdom"]},{"name":"Centre for Paediatrics and Child Health, Imperial College London","place":["London, United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Claire","family":"Dunican","sequence":"first","affiliation":[{"name":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","place":["London, United Kingdom"]},{"name":"Centre for Paediatrics and Child Health, Imperial College London","place":["London, United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4509-6109","authenticated-orcid":true,"given":"Pablo","family":"Soro-Barrio","sequence":"additional","affiliation":[{"name":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","place":["London, United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hyun Jae","family":"Lee","sequence":"additional","affiliation":[{"name":"Institute for Molecular Bioscience, University of Queensland","place":["Brisbane, Australia"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9878-4007","authenticated-orcid":true,"given":"Myrsini","family":"Kaforou","sequence":"additional","affiliation":[{"name":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","place":["London, United Kingdom"]},{"name":"Centre for Paediatrics and Child Health, Imperial College London","place":["London, United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1305-3529","authenticated-orcid":true,"given":"Aubrey J","family":"Cunnington","sequence":"additional","affiliation":[{"name":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","place":["London, United Kingdom"]},{"name":"Centre for Paediatrics and Child Health, Imperial College London","place":["London, United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"4374","published-online":{"date-parts":[[2022,1,10]]},"reference":[{"key":"bib1","doi-asserted-by":"publisher","first-page":"317","DOI":"10.4049\/jimmunol.171.1.317","article-title":"Plasmodium chabaudi chabaudi infection in mice induces strong B cell responses and striking but temporary changes in splenic cell distribution","volume":"171","author":"Achtman","year":"2003","journal-title":"Journal of Immunology"},{"key":"bib2","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2018.03005","article-title":"Neutrophils and Malaria","volume":"9","author":"Aitken","year":"2018","journal-title":"Frontiers in Immunology"},{"key":"bib3","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-70617-7","article-title":"Testing the impact of a single nucleotide polymorphism in a Plasmodium berghei ApiAP2 transcription factor on experimental cerebral malaria in mice","volume":"10","author":"Akkaya","year":"2020","journal-title":"Scientific Reports"},{"key":"bib4","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0029979","article-title":"Expression profiling of human immune cell subsets identifies miRNA-mRNA regulatory relationships correlated with cell type specific expression","volume":"7","author":"Allantaz","year":"2012","journal-title":"PLOS ONE"},{"key":"bib5","doi-asserted-by":"publisher","first-page":"1646","DOI":"10.1002\/1521-4141(200006)30:6<1646::AID-IMMU1646>3.0.CO;2-0","article-title":"Involvement of IFN-gamma receptor-medicated signaling in pathology and anti-malarial immunity induced by Plasmodium berghei infection","volume":"30","author":"Amani","year":"2000","journal-title":"European Journal of Immunology"},{"key":"bib6","doi-asserted-by":"publisher","first-page":"166","DOI":"10.1093\/bioinformatics\/btu638","article-title":"HTSeq--a Python framework to work with high-throughput sequencing data","volume":"31","author":"Anders","year":"2015","journal-title":"Bioinformatics"},{"key":"bib7","article-title":"FastQC: A Quality Control Tool for High Throughput Sequence Data","volume-title":"FastQC","author":"Andrew","year":"2010","unstructured":"Andrew S. 2010. FastQC: A Quality Control Tool for High Throughput Sequence Data. FastQC."},{"key":"bib8","doi-asserted-by":"publisher","first-page":"D539","DOI":"10.1093\/nar\/gkn814","article-title":"PlasmoDB: a functional genomic database for malaria parasites","volume":"37","author":"Aurrecoechea","year":"2009","journal-title":"Nucleic Acids Research"},{"key":"bib9","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1003406","article-title":"Extramedullary myelopoiesis in malaria depends on mobilization of myeloid-restricted progenitors by IFN-\u03b3 induced chemokines","volume":"9","author":"Belyaev","year":"2013","journal-title":"PLOS Pathogens"},{"key":"bib10","doi-asserted-by":"publisher","first-page":"614","DOI":"10.1016\/j.ebiom.2018.12.055","article-title":"The blood transcriptome of childhood malaria","volume":"40","author":"Boldt","year":"2019","journal-title":"EBioMedicine"},{"key":"bib11","doi-asserted-by":"publisher","first-page":"823","DOI":"10.1111\/j.1476-5381.2011.01811.x","article-title":"Concordance of preclinical and clinical pharmacology and toxicology of therapeutic monoclonal antibodies and fusion proteins: cell surface targets","volume":"166","author":"Bugelski","year":"2012","journal-title":"British Journal of Pharmacology"},{"key":"bib12","doi-asserted-by":"publisher","DOI":"10.1155\/2013\/204240","article-title":"Pathogen-driven selection in the human genome","volume":"2013","author":"Cagliani","year":"2013","journal-title":"International Journal of Evolutionary Biology"},{"key":"bib13","doi-asserted-by":"publisher","DOI":"10.1038\/srep39258","article-title":"Transcriptomic profiling of microglia reveals signatures of cell activation and immune response, during experimental cerebral malaria","volume":"6","author":"Capuccini","year":"2016","journal-title":"Scientific Reports"},{"key":"bib14","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0013124","article-title":"A rapid murine coma and behavior scale for quantitative assessment of murine cerebral malaria","volume":"5","author":"Carroll","year":"2010","journal-title":"PLOS ONE"},{"key":"bib15","doi-asserted-by":"publisher","first-page":"1584","DOI":"10.1093\/bioinformatics\/btv015","article-title":"CellCODE: a robust latent variable approach to differential expression analysis for heterogeneous cell populations","volume":"31","author":"Chikina","year":"2015","journal-title":"Bioinformatics"},{"key":"bib16","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-12017-8","article-title":"Lung endothelial cell antigen cross-presentation to CD8+T cells drives malaria-associated lung injury","volume":"10","author":"Claser","year":"2019","journal-title":"Nature Communications"},{"key":"bib17","doi-asserted-by":"publisher","first-page":"5806","DOI":"10.1128\/IAI.01005-07","article-title":"Macrophage-mediated but gamma interferon-independent innate immune responses control the primary wave of Plasmodium yoelii parasitemia","volume":"75","author":"Couper","year":"2007","journal-title":"Infection and Immunity"},{"key":"bib18","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1000004","article-title":"IL-10 from CD4CD25Foxp3CD127 adaptive regulatory T cells modulates parasite clearance and pathology during malaria infection","volume":"4","author":"Couper","year":"2008","journal-title":"PLOS Pathogens"},{"key":"bib19","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1002401","article-title":"The role of animal models for research on severe malaria","volume":"8","author":"Craig","year":"2012","journal-title":"PLOS Pathogens"},{"key":"bib20","doi-asserted-by":"publisher","first-page":"220","DOI":"10.1016\/j.jinf.2013.04.013","article-title":"Comparison of parasite sequestration in uncomplicated and severe childhood Plasmodium falciparum malaria","volume":"67","author":"Cunnington","year":"2013","journal-title":"The Journal of Infection"},{"key":"bib21","doi-asserted-by":"publisher","first-page":"1593","DOI":"10.1128\/iai.65.5.1593-1598.1997","article-title":"Early gamma interferon responses in lethal and nonlethal murine blood-stage malaria","volume":"65","author":"De Souza","year":"1997","journal-title":"Infection and Immunity"},{"key":"bib22","doi-asserted-by":"publisher","first-page":"589","DOI":"10.1165\/rcmb.2012-0450OC","article-title":"Hemozoin induces lung inflammation and correlates with malaria-associated acute respiratory distress syndrome","volume":"48","author":"Deroost","year":"2013","journal-title":"American Journal of Respiratory Cell and Molecular Biology"},{"key":"bib23","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","article-title":"STAR: ultrafast universal RNA-seq aligner","volume":"29","author":"Dobin","year":"2013","journal-title":"Bioinformatics"},{"key":"bib24","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1128\/CMR.00025-08","article-title":"Acquired immunity to malaria","volume":"22","author":"Doolan","year":"2009","journal-title":"Clinical Microbiology Reviews"},{"key":"bib25","doi-asserted-by":"publisher","DOI":"10.1186\/1475-2875-10-271","article-title":"Genetic polymorphisms linked to susceptibility to malaria","volume":"10","author":"Driss","year":"2011","journal-title":"Malaria Journal"},{"key":"bib26","doi-asserted-by":"publisher","first-page":"3439","DOI":"10.1093\/bioinformatics\/bti525","article-title":"BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis","volume":"21","author":"Durinck","year":"2005","journal-title":"Bioinformatics"},{"key":"bib27","doi-asserted-by":"publisher","first-page":"1184","DOI":"10.1038\/nprot.2009.97","article-title":"Mapping identifiers for the integration of genomic datasets with the R\/Bioconductor package biomaRt","volume":"4","author":"Durinck","year":"2009","journal-title":"Nature Protocols"},{"key":"bib28","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.01300-15","article-title":"Activated Neutrophils Are Associated with Pediatric Cerebral Malaria Vasculopathy in Malawian Children","volume":"7","author":"Feintuch","year":"2016","journal-title":"MBio"},{"key":"bib29","doi-asserted-by":"publisher","first-page":"1692","DOI":"10.4269\/ajtmh.17-0887","article-title":"Type I Interferon Receptor Variants in Gene Regulatory Regions are Associated with Susceptibility to Cerebral Malaria in Malawi","volume":"98","author":"Feintuch","year":"2018","journal-title":"The American Journal of Tropical Medicine and Hygiene"},{"key":"bib30","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0220325","article-title":"A standardised framework to identify optimal animal models for efficacy assessment in drug development","volume":"14","author":"Ferreira","year":"2019","journal-title":"PLOS ONE"},{"key":"bib31","doi-asserted-by":"publisher","first-page":"2482","DOI":"10.4049\/jimmunol.0904019","article-title":"Essential role for IL-27 receptor signaling in prevention of Th1-mediated immunopathology during malaria infection","volume":"185","author":"Findlay","year":"2010","journal-title":"Journal of Immunology"},{"key":"bib32","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0162132","article-title":"A Novel Model of Asymptomatic Plasmodium Parasitemia That Recapitulates Elements of the Human Immune Response to Chronic Infection","volume":"11","author":"Fontana","year":"2016","journal-title":"PLOS ONE"},{"key":"bib33","doi-asserted-by":"publisher","DOI":"10.1002\/cti2.1263","article-title":"Localised release of matrix metallopeptidase 8 in fatal cerebral malaria","volume":"10","author":"Georgiadou","year":"2021","journal-title":"Clinical & Translational Immunology"},{"key":"bib34","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2018.02016","article-title":"Cerebral Malaria in Mouse and Man","volume":"9","author":"Ghazanfari","year":"2018","journal-title":"Frontiers in Immunology"},{"key":"bib35","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2018.03006","article-title":"Parasite Recognition and Signaling Mechanisms in Innate Immune Responses to Malaria","volume":"9","author":"Gowda","year":"2018","journal-title":"Frontiers in Immunology"},{"key":"bib36","article-title":"gplots: Various R Programming Tools for Plotting Data","volume-title":"R Package Version","author":"Gregory","year":"2021","unstructured":"Gregory BB, Bonebakker L, Gentleman R, Huber W, Liaw A, Lumley T, Maechler M, Magnusson A, Moeller S, Schwartz M, Venables B. 2021. gplots: Various R Programming Tools for Plotting Data. R Package Version. ed2020."},{"key":"bib37","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-59745-285-4_1","volume-title":"Animal Models for Human Diseases","author":"Hau","year":"2008"},{"key":"bib38","doi-asserted-by":"publisher","DOI":"10.3389\/fcimb.2020.594621","article-title":"Type I Interferons and Malaria: A Double-Edge Sword Against a Complex Parasitic Disease","volume":"10","author":"He","year":"2020","journal-title":"Frontiers in Cellular and Infection Microbiology"},{"key":"bib39","doi-asserted-by":"publisher","first-page":"467","DOI":"10.1046\/j.1365-2249.2003.02160.x","article-title":"Circulating concentrations of soluble granzyme A and B increase during natural and experimental Plasmodium falciparum infections","volume":"132","author":"Hermsen","year":"2003","journal-title":"Clinical and Experimental Immunology"},{"key":"bib40","doi-asserted-by":"publisher","first-page":"317","DOI":"10.1038\/nri3192","article-title":"The storm has cleared: lessons from the CD28 superagonist TGN1412 trial","volume":"12","author":"H\u00fcnig","year":"2012","journal-title":"Nature Reviews. Immunology"},{"key":"bib41","doi-asserted-by":"publisher","first-page":"16786","DOI":"10.1073\/pnas.1204945109","article-title":"Evidence for additive and interaction effects of host genotype and infection in malaria","volume":"109","author":"Idaghdour","year":"2012","journal-title":"PNAS"},{"key":"bib42","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1242\/dmm.024547","article-title":"Using the mouse to model human disease: increasing validity and reproducibility","volume":"9","author":"Justice","year":"2016","journal-title":"Disease Models & Mechanisms"},{"key":"bib43","article-title":"factoextra: Extract and Visualize the Results of Multivariate Data Analyses","volume-title":"R Package Version","author":"Kassambara","year":"2021","unstructured":"Kassambara A, Mundt F. 2021. factoextra: Extract and Visualize the Results of Multivariate Data Analyses. R Package Version. ed2020."},{"key":"bib44","doi-asserted-by":"publisher","first-page":"1375","DOI":"10.1007\/s00439-012-1175-1","article-title":"Reduced interferon (IFN)-\u03b1 conditioned by IFNA2 (-173) and IFNA8 (-884) haplotypes is associated with enhanced susceptibility to severe malarial anemia and longitudinal all-cause mortality","volume":"131","author":"Kempaiah","year":"2012","journal-title":"Human Genetics"},{"key":"bib45","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1005118","article-title":"Interferon-\u03b3: The Jekyll and Hyde of Malaria","volume":"11","author":"King","year":"2015","journal-title":"PLOS Pathogens"},{"key":"bib46","doi-asserted-by":"publisher","DOI":"10.1126\/sciimmunol.aaw0336","article-title":"Neutrophil extracellular traps drive inflammatory pathogenesis in malaria","volume":"4","author":"Knackstedt","year":"2019","journal-title":"Science Immunology"},{"key":"bib47","doi-asserted-by":"publisher","first-page":"67","DOI":"10.1016\/0035-9203(94)90504-5","article-title":"Lactic acidosis and hypoglycaemia in children with severe malaria: pathophysiological and prognostic significance","volume":"88","author":"Krishna","year":"1994","journal-title":"Transactions of the Royal Society of Tropical Medicine and Hygiene"},{"key":"bib48","doi-asserted-by":"publisher","first-page":"1150","DOI":"10.1128\/IAI.06008-11","article-title":"Mild Plasmodium falciparum malaria following an episode of severe malaria is associated with induction of the interferon pathway in Malawian children","volume":"80","author":"Krupka","year":"2012","journal-title":"Infection and Immunity"},{"key":"bib49","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1017\/S1462399406010581","article-title":"Insights into the immunopathogenesis of malaria using mouse models","volume":"8","author":"Lamb","year":"2006","journal-title":"Expert Reviews in Molecular Medicine"},{"key":"bib50","doi-asserted-by":"publisher","first-page":"18","DOI":"10.1182\/blood-2006-09-018069","article-title":"Malarial anemia: of mice and men","volume":"110","author":"Lamikanra","year":"2007","journal-title":"Blood"},{"key":"bib51","doi-asserted-by":"publisher","DOI":"10.18637\/jss.v025.i01","article-title":"FactoMineR: An R Package for Multivariate Analysis","volume":"25","author":"L\u00ea","year":"2008","journal-title":"Journal of Statistical Software"},{"key":"bib52","doi-asserted-by":"publisher","DOI":"10.1128\/MMBR.00071-17","article-title":"Transcriptomic Studies of Malaria: a Paradigm for Investigation of Systemic Host-Pathogen Interactions","volume":"82","author":"Lee","year":"2018","journal-title":"Microbiology and Molecular Biology Reviews"},{"key":"bib53","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.aar3619","article-title":"Integrated pathogen load and dual transcriptome analysis of systemic host-pathogen interactions in severe malaria","volume":"10","author":"Lee","year":"2018","journal-title":"Science Translational Medicine"},{"key":"bib54","doi-asserted-by":"publisher","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The Sequence Alignment\/Map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"bib55","article-title":"Aligning Sequence Reads, Clone Sequences and Assembly Contigs with BWA-MEM","volume-title":"arXiv","author":"Li","year":"2013","unstructured":"Li HW. 2013. Aligning Sequence Reads, Clone Sequences and Assembly Contigs with BWA-MEM. arXiv. https:\/\/arxiv.org\/abs\/1303.3997."},{"key":"bib56","doi-asserted-by":"publisher","first-page":"6987","DOI":"10.1073\/pnas.0800387105","article-title":"Null mutations in human and mouse orthologs frequently result in different phenotypes","volume":"105","author":"Liao","year":"2008","journal-title":"PNAS"},{"key":"bib57","doi-asserted-by":"publisher","DOI":"10.1038\/srep41722","article-title":"Signatures of malaria-associated pathology revealed by high-resolution whole-blood transcriptomics in a rodent model of malaria","volume":"7","author":"Lin","year":"2017","journal-title":"Scientific Reports"},{"key":"bib58","doi-asserted-by":"publisher","DOI":"10.14806\/ej.17.1.200","article-title":"Cutadapt removes adapter sequences from high-throughput sequencing reads","volume":"17","author":"Martin","year":"2011","journal-title":"EMBnet.Journal"},{"key":"bib59","doi-asserted-by":"publisher","first-page":"2731","DOI":"10.4049\/jimmunol.172.5.2731","article-title":"Of mice and not men: differences between mouse and human immunology","volume":"172","author":"Mestas","year":"2004","journal-title":"Journal of Immunology"},{"key":"bib60","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0161778","article-title":"Evaluation of Existing Methods for Human Blood mRNA Isolation and Analysis for Large Studies","volume":"11","author":"Meyer","year":"2016","journal-title":"PLOS ONE"},{"key":"bib61","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.62800","article-title":"Mapping immune variation and var gene switching in naive hosts infected with Plasmodium falciparum","volume":"10","author":"Milne","year":"2021","journal-title":"eLife"},{"key":"bib62","doi-asserted-by":"publisher","first-page":"5645","DOI":"10.1128\/IAI.73.9.5645-5653.2005","article-title":"Early cytokine production is associated with protection from murine cerebral malaria","volume":"73","author":"Mitchell","year":"2005","journal-title":"Infection and Immunity"},{"key":"bib63","doi-asserted-by":"publisher","first-page":"315","DOI":"10.1146\/annurev-pathmechdis-012419-032640","article-title":"New Insights into Malaria Pathogenesis","volume":"15","author":"Moxon","year":"2020","journal-title":"Annual Review of Pathology"},{"key":"bib64","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.63838","article-title":"Inducible mechanisms of disease tolerance provide an alternative strategy of acquired immunity to malaria","volume":"10","author":"Nahrendorf","year":"2021","journal-title":"eLife"},{"key":"bib65","doi-asserted-by":"publisher","first-page":"6877","DOI":"10.4049\/jimmunol.180.10.6877","article-title":"Coinfection with nonlethal murine malaria parasites suppresses pathogenesis caused by Plasmodium berghei NK65","volume":"180","author":"Niikura","year":"2008","journal-title":"Journal of Immunology"},{"key":"bib66","doi-asserted-by":"publisher","first-page":"1067","DOI":"10.1038\/s41592-018-0214-9","article-title":"Found In Translation: a machine learning model for mouse-to-human inference","volume":"15","author":"Normand","year":"2018","journal-title":"Nature Methods"},{"key":"bib67","doi-asserted-by":"publisher","DOI":"10.1186\/1475-2875-8-4","article-title":"Age patterns of severe paediatric malaria and their relationship to Plasmodium falciparum transmission intensity","volume":"8","author":"Okiro","year":"2009","journal-title":"Malaria Journal"},{"key":"bib68","doi-asserted-by":"publisher","first-page":"7167","DOI":"10.1073\/pnas.0811313106","article-title":"Single amino acid substitution in Plasmodium yoelii erythrocyte ligand determines its localization and controls parasite virulence","volume":"106","author":"Otsuki","year":"2009","journal-title":"PNAS"},{"key":"bib69","doi-asserted-by":"publisher","DOI":"10.1186\/s12917-020-02451-y","article-title":"The ARRIVE guidelines 2.0: Updated guidelines for reporting animal research","volume":"16","author":"Percie du Sert","year":"2020","journal-title":"BMC Veterinary Research"},{"key":"bib70","doi-asserted-by":"publisher","DOI":"10.1186\/s12967-018-1678-1","article-title":"Is it possible to overcome issues of external validity in preclinical animal research? Why most animal models are bound to fail","volume":"16","author":"Pound","year":"2018","journal-title":"Journal of Translational Medicine"},{"key":"bib71","doi-asserted-by":"publisher","DOI":"10.3389\/fimmu.2016.00463","article-title":"Malaria Parasites: The Great Escape","volume":"7","author":"R\u00e9nia","year":"2016","journal-title":"Frontiers in Immunology"},{"key":"bib72","doi-asserted-by":"publisher","first-page":"1128","DOI":"10.1172\/JCI133474","article-title":"CD8+ T cells target cerebrovasculature in children with cerebral malaria","volume":"130","author":"Riggle","year":"2020","journal-title":"The Journal of Clinical Investigation"},{"key":"bib73","doi-asserted-by":"publisher","first-page":"24","DOI":"10.1038\/nbt.1754","article-title":"Integrative genomics viewer","volume":"29","author":"Robinson","year":"2011","journal-title":"Nature Biotechnology"},{"key":"bib74","doi-asserted-by":"publisher","first-page":"176","DOI":"10.1111\/imm.12971","article-title":"Effects of type I interferons in malaria","volume":"155","author":"Sebina","year":"2018","journal-title":"Immunology"},{"key":"bib75","doi-asserted-by":"publisher","first-page":"3507","DOI":"10.1073\/pnas.1222878110","article-title":"Genomic responses in mouse models poorly mimic human inflammatory diseases","volume":"110","author":"Seok","year":"2013","journal-title":"PNAS"},{"key":"bib76","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1006054","article-title":"Targeting Neutrophils to Prevent Malaria-Associated Acute Lung Injury\/Acute Respiratory Distress Syndrome in Mice","volume":"12","author":"Sercundes","year":"2016","journal-title":"PLOS Pathogens"},{"key":"bib77","doi-asserted-by":"publisher","first-page":"2946","DOI":"10.1073\/pnas.1222738110","article-title":"Conservation and divergence in the transcriptional programs of the human and mouse immune systems","volume":"110","author":"Shay","year":"2013","journal-title":"PNAS"},{"key":"bib78","doi-asserted-by":"publisher","first-page":"397","DOI":"10.1007\/0-387-29362-0","volume-title":"Bioinformatics and Computational Biology Solutions Using R and Bioconductor","author":"Smyth","year":"2005"},{"key":"bib79","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1005975","article-title":"STING-Licensed Macrophages Prime Type I IFN Production by Plasmacytoid Dendritic Cells in the Bone Marrow during Severe Plasmodium yoelii Malaria","volume":"12","author":"Spaulding","year":"2016","journal-title":"PLOS Pathogens"},{"key":"bib80","doi-asserted-by":"publisher","first-page":"3431","DOI":"10.1002\/eji.201546018","article-title":"IL-18-induced expression of high-affinity IL-2R on murine NK cells is essential for NK-cell IFN-\u03b3 production during murine Plasmodium yoelii infection","volume":"45","author":"Stegmann","year":"2015","journal-title":"European Journal of Immunology"},{"key":"bib81","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1126\/science.1087447","article-title":"A gene-coexpression network for global discovery of conserved genetic modules","volume":"302","author":"Stuart","year":"2003","journal-title":"Science"},{"key":"bib82","doi-asserted-by":"publisher","first-page":"1322","DOI":"10.1093\/infdis\/jiv217","article-title":"The T-Cell Inhibitory Molecule Butyrophilin-Like 2 Is Up-regulated in Mild Plasmodium falciparum Infection and Is Protective During Experimental Cerebral Malaria","volume":"212","author":"Subramaniam","year":"2015","journal-title":"The Journal of Infectious Diseases"},{"key":"bib83","doi-asserted-by":"publisher","first-page":"140","DOI":"10.1093\/infdis\/jit417","article-title":"Plasmodium products contribute to severe malarial anemia by inhibiting erythropoietin-induced proliferation of erythroid precursors","volume":"209","author":"Thawani","year":"2014","journal-title":"The Journal of Infectious Diseases"},{"key":"bib84","doi-asserted-by":"publisher","first-page":"383","DOI":"10.1111\/j.1365-3024.2012.01366.x","article-title":"Endogenous galectin-3 controls experimental malaria in a species-specific manner","volume":"34","author":"Toscano","year":"2012","journal-title":"Parasite Immunology"},{"key":"bib85","doi-asserted-by":"publisher","DOI":"10.1186\/1475-2875-9-350","article-title":"Apoptosis of non-parasitized red blood cells in malaria: a putative mechanism involved in the pathogenesis of anaemia","volume":"9","author":"Totino","year":"2010","journal-title":"Malaria Journal"},{"key":"bib86","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1007\/3-540-29967-x_2","article-title":"Early interactions between blood-stage plasmodium parasites and the immune system","volume":"297","author":"Urban","year":"2005","journal-title":"Current Topics in Microbiology and Immunology"},{"key":"bib87","doi-asserted-by":"publisher","first-page":"957","DOI":"10.1164\/rccm.200905-0786OC","article-title":"Immunopathology and Dexamethasone Therapy in a New Model for Malaria-associated Acute Respiratory Distress Syndrome","volume":"181","author":"Van den Steen","year":"2010","journal-title":"American Journal of Respiratory and Critical Care Medicine"},{"key":"bib88","doi-asserted-by":"publisher","DOI":"10.1186\/s12936-018-2251-3","article-title":"Experimental malaria-associated acute respiratory distress syndrome is dependent on the parasite-host combination and coincides with normocyte invasion","volume":"17","author":"Vandermosten","year":"2018","journal-title":"Malaria Journal"},{"key":"bib89","doi-asserted-by":"publisher","DOI":"10.3389\/fcimb.2021.768182","article-title":"Oxidative Stress and Pathogenesis in Malaria","volume":"11","author":"Vasquez","year":"2021","journal-title":"Frontiers in Cellular and Infection Microbiology"},{"key":"bib90","doi-asserted-by":"publisher","first-page":"2885","DOI":"10.4049\/jimmunol.1100241","article-title":"Heterogeneous and tissue-specific regulation of effector T cell responses by IFN-gamma during Plasmodium berghei ANKA infection","volume":"187","author":"Villegas-Mendez","year":"2011","journal-title":"Journal of Immunology"},{"key":"bib91","doi-asserted-by":"publisher","first-page":"968","DOI":"10.4049\/jimmunol.1200688","article-title":"IFN-\u03b3-producing CD4+ T cells promote experimental cerebral malaria by modulating CD8+ T cell accumulation within the brain","volume":"189","author":"Villegas-Mendez","year":"2012","journal-title":"Journal of Immunology"},{"key":"bib92","article-title":"ggbiplot: A ggplot2 based biplot","volume-title":"R Package Version","author":"Vu","year":"2021","unstructured":"Vu VQ. 2021. ggbiplot: A ggplot2 based biplot. R Package Version."},{"key":"bib93","doi-asserted-by":"publisher","first-page":"183","DOI":"10.1017\/s0031182000048484","article-title":"A genetic investigation of virulence in a rodent malaria parasite","volume":"72","author":"Walliker","year":"1976","journal-title":"Parasitology"},{"key":"bib94","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1000364","article-title":"Distinct roles for FOXP3 and FOXP3 CD4 T cells in regulating cellular immunity to uncomplicated and severe Plasmodium falciparum malaria","volume":"5","author":"Walther","year":"2009","journal-title":"PLOS Pathogens"},{"key":"bib95","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1038\/nrg2484","article-title":"RNA-Seq: a revolutionary tool for transcriptomics","volume":"10","author":"Wang","year":"2009","journal-title":"Nature Reviews. Genetics"},{"key":"bib96","doi-asserted-by":"publisher","first-page":"42","DOI":"10.4269\/ajtmh.14-0841","article-title":"Investigating the Pathogenesis of Severe Malaria: A Multidisciplinary and Cross-Geographical Approach","volume":"93","author":"Wassmer","year":"2015","journal-title":"The American Journal of Tropical Medicine and Hygiene"},{"key":"bib97","doi-asserted-by":"publisher","first-page":"11","DOI":"10.1016\/j.pt.2009.10.007","article-title":"The murine cerebral malaria phenomenon","volume":"26","author":"White","year":"2010","journal-title":"Trends in Parasitology"},{"key":"bib98","doi-asserted-by":"publisher","first-page":"286","DOI":"10.1128\/IAI.00272-13","article-title":"HLA class II (DR0401) molecules induce Foxp3+ regulatory T cell suppression of B cells in Plasmodium yoelii strain 17XNL malaria","volume":"82","author":"Wijayalath","year":"2014","journal-title":"Infection and Immunity"},{"key":"bib99","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.15931.2","article-title":"FastQ Screen: A tool for multi-genome mapping and quality control","volume":"7","author":"Wingett","year":"2018","journal-title":"F1000Research"},{"key":"bib100","doi-asserted-by":"publisher","first-page":"572","DOI":"10.1126\/science.184.4136.572","article-title":"Brain capillary blockage produced by a virulent strain of rodent malaria","volume":"184","author":"Yoeli","year":"1974","journal-title":"Science"},{"key":"bib101","doi-asserted-by":"publisher","first-page":"1093","DOI":"10.1016\/j.immuni.2016.10.001","article-title":"Cross-Regulation of Two Type I Interferon Signaling Pathways in Plasmacytoid Dendritic Cells Controls Anti-malaria Immunity and Host Mortality","volume":"45","author":"Yu","year":"2016","journal-title":"Immunity"},{"key":"bib102","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2010-11-12-r124","article-title":"Large scale comparison of global gene expression patterns in human and mouse","volume":"11","author":"Zheng-Bradley","year":"2010","journal-title":"Genome Biology"},{"key":"bib103","doi-asserted-by":"publisher","first-page":"113","DOI":"10.1016\/j.jim.2014.05.001","article-title":"Malaria infections: what and how can mice teach us","volume":"410","author":"Zuzarte-Luis","year":"2014","journal-title":"Journal of Immunological Methods"}],"container-title":["eLife"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/cdn.elifesciences.org\/articles\/70763\/elife-70763-v1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/cdn.elifesciences.org\/articles\/70763\/elife-70763-v1.xml","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/elifesciences.org\/articles\/70763","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,10,11]],"date-time":"2023-10-11T21:05:24Z","timestamp":1697058324000},"score":1,"resource":{"primary":{"URL":"https:\/\/elifesciences.org\/articles\/70763"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,1,10]]},"references-count":103,"alternative-id":["10.7554\/eLife.70763"],"URL":"https:\/\/doi.org\/10.7554\/elife.70763","archive":["CLOCKSS"],"relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2021.05.11.443626","asserted-by":"subject"},{"id-type":"doi","id":"10.1101\/2021.05.11.443626","asserted-by":"object"}],"references":[{"id-type":"accession","id":"GSE1124","asserted-by":"subject"},{"id-type":"accession","id":"GSE34404","asserted-by":"subject"},{"id-type":"accession","id":"E-MTAB-6413","asserted-by":"subject"},{"id-type":"accession","id":"GSE132050","asserted-by":"subject"},{"id-type":"accession","id":"GSE93631","asserted-by":"subject"}],"is-supplemented-by":[{"id-type":"accession","id":"PRJEB43641","asserted-by":"subject"}],"has-review":[{"id-type":"doi","id":"10.7554\/eLife.70763.sa2","asserted-by":"object"},{"id-type":"doi","id":"10.7554\/eLife.70763.sa0","asserted-by":"object"},{"id-type":"doi","id":"10.7554\/eLife.70763.sa1","asserted-by":"object"}]},"ISSN":["2050-084X"],"issn-type":[{"value":"2050-084X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,1,10]]},"assertion":[{"value":"single anonymised","name":"peer_review_transparency","label":"Peer review transparency","group":{"name":"peer_review_taxonomy"}},{"value":"other reviewer(s), editor","name":"peer_review_interaction","label":"Peer review interaction","group":{"name":"peer_review_taxonomy"}},{"value":"review summaries, review reports, author\/editor communication, reviewer identities reviewer opt in, editor identities","name":"peer_review_published","label":"Peer review published","group":{"name":"peer_review_taxonomy"}},{"value":"open (sign in with ORCID iD required)","name":"post_publication_commenting","label":"Post publication commenting","group":{"name":"post_publication_commenting"}}],"article-number":"e70763"}}