{"id":"https://openalex.org/W4379880600","doi":"https://doi.org/10.7554/elife.87726.1","title":"A novel computational pipeline for var gene expression augments the discovery of changes in the Plasmodium falciparum transcriptome during transition from in vivo to short-term in vitro culture","display_name":"A novel computational pipeline for var gene expression augments the discovery of changes in the Plasmodium falciparum transcriptome during transition from in vivo to short-term in vitro culture","publication_year":2023,"publication_date":"2023-06-08","ids":{"openalex":"https://openalex.org/W4379880600","doi":"https://doi.org/10.7554/elife.87726.1"},"language":"en","primary_location":{"id":"doi:10.7554/elife.87726.1","doi":"https://doi.org/10.7554/elife.87726.1","is_oa":true,"landing_page_url":"https://doi.org/10.7554/elife.87726.1","pdf_url":null,"source":{"id":"https://openalex.org/S1336409049","display_name":"eLife","issn_l":"2050-084X","issn":["2050-084X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-a","jufo-2","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310311710","host_organization_name":"eLife Sciences Publications Ltd","host_organization_lineage":["https://openalex.org/P4310311710"],"host_organization_lineage_names":["eLife Sciences Publications Ltd"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"eLife","raw_type":"posted-content"},"volume":null,"type":"preprint","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.7554/elife.87726.1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5025215211","display_name":"Clare Andradi-Brown","orcid":"https://orcid.org/0000-0003-2461-5256","observed_orcids":["https://orcid.org/0000-0003-2461-5256"]},"institutions":[{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Clare Andradi-Brown","raw_affiliation_strings":["Centre for Paediatrics and Child Health, Imperial College London","Department of Life Sciences, Imperial College London","Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Paediatrics and Child Health, Imperial College London","institution_ids":["https://openalex.org/I47508984"]},{"raw_affiliation_string":"Department of Life Sciences, Imperial College London","institution_ids":["https://openalex.org/I47508984"]},{"raw_affiliation_string":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","institution_ids":["https://openalex.org/I47508984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016289843","display_name":"Jan Stephan Wichers-Misterek","orcid":"https://orcid.org/0000-0002-0599-1742","observed_orcids":["https://orcid.org/0000-0002-0599-1742"]},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I4210157805","display_name":"Centre for Structural Systems Biology","ror":"https://ror.org/04fhwda97","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137251492","https://openalex.org/I159176309","https://openalex.org/I2801876189","https://openalex.org/I315704651","https://openalex.org/I34809795","https://openalex.org/I4210108711","https://openalex.org/I4210124929","https://openalex.org/I4210128097","https://openalex.org/I4210138560","https://openalex.org/I4210153543","https://openalex.org/I4210157805","https://openalex.org/I94402716"]},{"id":"https://openalex.org/I94402716","display_name":"Bernhard Nocht Institute for Tropical Medicine","ror":"https://ror.org/01evwfd48","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I94402716"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jan Stephan Wichers-Misterek","raw_affiliation_strings":["Bernhard Nocht Institute for Tropical Medicine","Biology Department, University of Hamburg","Centre for Structural Systems Biology"],"raw_orcid":"https://orcid.org/0000-0002-0599-1742","affiliations":[{"raw_affiliation_string":"Bernhard Nocht Institute for Tropical Medicine","institution_ids":["https://openalex.org/I94402716"]},{"raw_affiliation_string":"Biology Department, University of Hamburg","institution_ids":["https://openalex.org/I159176309"]},{"raw_affiliation_string":"Centre for Structural Systems Biology","institution_ids":["https://openalex.org/I4210157805"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073446570","display_name":"Heidrun von Thien","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I4210157805","display_name":"Centre for Structural Systems Biology","ror":"https://ror.org/04fhwda97","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137251492","https://openalex.org/I159176309","https://openalex.org/I2801876189","https://openalex.org/I315704651","https://openalex.org/I34809795","https://openalex.org/I4210108711","https://openalex.org/I4210124929","https://openalex.org/I4210128097","https://openalex.org/I4210138560","https://openalex.org/I4210153543","https://openalex.org/I4210157805","https://openalex.org/I94402716"]},{"id":"https://openalex.org/I94402716","display_name":"Bernhard Nocht Institute for Tropical Medicine","ror":"https://ror.org/01evwfd48","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I94402716"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Heidrun von Thien","raw_affiliation_strings":["Bernhard Nocht Institute for Tropical Medicine","Biology Department, University of Hamburg","Centre for Structural Systems Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bernhard Nocht Institute for Tropical Medicine","institution_ids":["https://openalex.org/I94402716"]},{"raw_affiliation_string":"Biology Department, University of Hamburg","institution_ids":["https://openalex.org/I159176309"]},{"raw_affiliation_string":"Centre for Structural Systems Biology","institution_ids":["https://openalex.org/I4210157805"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004182040","display_name":"Yannick D. H\u00f6ppner","orcid":"https://orcid.org/0000-0001-5112-065X","observed_orcids":["https://orcid.org/0000-0001-5112-065X"]},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I4210157805","display_name":"Centre for Structural Systems Biology","ror":"https://ror.org/04fhwda97","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137251492","https://openalex.org/I159176309","https://openalex.org/I2801876189","https://openalex.org/I315704651","https://openalex.org/I34809795","https://openalex.org/I4210108711","https://openalex.org/I4210124929","https://openalex.org/I4210128097","https://openalex.org/I4210138560","https://openalex.org/I4210153543","https://openalex.org/I4210157805","https://openalex.org/I94402716"]},{"id":"https://openalex.org/I94402716","display_name":"Bernhard Nocht Institute for Tropical Medicine","ror":"https://ror.org/01evwfd48","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I94402716"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Yannick D. H\u00f6ppner","raw_affiliation_strings":["Bernhard Nocht Institute for Tropical Medicine","Biology Department, University of Hamburg","Centre for Structural Systems Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bernhard Nocht Institute for Tropical Medicine","institution_ids":["https://openalex.org/I94402716"]},{"raw_affiliation_string":"Biology Department, University of Hamburg","institution_ids":["https://openalex.org/I159176309"]},{"raw_affiliation_string":"Centre for Structural Systems Biology","institution_ids":["https://openalex.org/I4210157805"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111098720","display_name":"Judith A. M. Scholz","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I94402716","display_name":"Bernhard Nocht Institute for Tropical Medicine","ror":"https://ror.org/01evwfd48","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I94402716"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Judith A. M. Scholz","raw_affiliation_strings":["Bernhard Nocht Institute for Tropical Medicine"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bernhard Nocht Institute for Tropical Medicine","institution_ids":["https://openalex.org/I94402716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061424635","display_name":"Helle Smedegaard Hansson","orcid":"https://orcid.org/0000-0001-6484-1165","observed_orcids":["https://orcid.org/0000-0001-6484-1165"]},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Helle Smedegaard Hansson","raw_affiliation_strings":["CMP, University of Copenhagen"],"raw_orcid":"https://orcid.org/0000-0001-6484-1165","affiliations":[{"raw_affiliation_string":"CMP, University of Copenhagen","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034961566","display_name":"Emma Filtenborg Hocke","orcid":"https://orcid.org/0000-0002-0040-7041","observed_orcids":["https://orcid.org/0000-0002-0040-7041"]},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Emma Filtenborg Hocke","raw_affiliation_strings":["CMP, University of Copenhagen"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CMP, University of Copenhagen","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058136107","display_name":"Tim\u2010Wolf Gilberger","orcid":"https://orcid.org/0000-0002-7965-8272","observed_orcids":["https://orcid.org/0000-0002-7965-8272"]},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I4210157805","display_name":"Centre for Structural Systems Biology","ror":"https://ror.org/04fhwda97","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137251492","https://openalex.org/I159176309","https://openalex.org/I2801876189","https://openalex.org/I315704651","https://openalex.org/I34809795","https://openalex.org/I4210108711","https://openalex.org/I4210124929","https://openalex.org/I4210128097","https://openalex.org/I4210138560","https://openalex.org/I4210153543","https://openalex.org/I4210157805","https://openalex.org/I94402716"]},{"id":"https://openalex.org/I94402716","display_name":"Bernhard Nocht Institute for Tropical Medicine","ror":"https://ror.org/01evwfd48","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I94402716"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Tim-Wolf Gilberger","raw_affiliation_strings":["Bernhard Nocht Institute for Tropical Medicine","Biology Department, University of Hamburg","Centre for Structural Systems Biology"],"raw_orcid":"https://orcid.org/0000-0002-7965-8272","affiliations":[{"raw_affiliation_string":"Bernhard Nocht Institute for Tropical Medicine","institution_ids":["https://openalex.org/I94402716"]},{"raw_affiliation_string":"Biology Department, University of Hamburg","institution_ids":["https://openalex.org/I159176309"]},{"raw_affiliation_string":"Centre for Structural Systems Biology","institution_ids":["https://openalex.org/I4210157805"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072814324","display_name":"Michael F. Duffy","orcid":"https://orcid.org/0000-0001-5635-4033","observed_orcids":["https://orcid.org/0000-0001-5635-4033"]},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"The University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Michael F. Duffy","raw_affiliation_strings":["Department of Microbiology and Immunology, University of Melbourne"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Microbiology and Immunology, University of Melbourne","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040004606","display_name":"Thomas Lavstsen","orcid":"https://orcid.org/0000-0002-3044-4249","observed_orcids":["https://orcid.org/0000-0002-3044-4249"]},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Thomas Lavstsen","raw_affiliation_strings":["CMP, University of Copenhagen"],"raw_orcid":"https://orcid.org/0000-0002-3044-4249","affiliations":[{"raw_affiliation_string":"CMP, University of Copenhagen","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018262996","display_name":"Jake Baum","orcid":"https://orcid.org/0000-0002-0275-352X","observed_orcids":["https://orcid.org/0000-0002-0275-352X"]},"institutions":[{"id":"https://openalex.org/I31746571","display_name":"UNSW Sydney","ror":"https://ror.org/03r8z3t63","country_code":"AU","type":"education","lineage":["https://openalex.org/I31746571"]},{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["AU","GB"],"is_corresponding":false,"raw_author_name":"Jake Baum","raw_affiliation_strings":["Department of Life Sciences, Imperial College London","School of Biomedical Sciences, Faculty of Medicine & Health, UNSW"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Sciences, Imperial College London","institution_ids":["https://openalex.org/I47508984"]},{"raw_affiliation_string":"School of Biomedical Sciences, Faculty of Medicine & Health, UNSW","institution_ids":["https://openalex.org/I31746571"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012004257","display_name":"Thomas D. Otto","orcid":"https://orcid.org/0000-0002-1246-7404","observed_orcids":["https://orcid.org/0000-0002-1246-7404","https://orcid.org/0000-0002-6182-8659"]},"institutions":[{"id":"https://openalex.org/I7882870","display_name":"University of Glasgow","ror":"https://ror.org/00vtgdb53","country_code":"GB","type":"education","lineage":["https://openalex.org/I7882870"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Thomas D. Otto","raw_affiliation_strings":["School of Infection & Immunity, MVLS, University of Glasgow"],"raw_orcid":"https://orcid.org/0000-0002-1246-7404","affiliations":[{"raw_affiliation_string":"School of Infection & Immunity, MVLS, University of Glasgow","institution_ids":["https://openalex.org/I7882870"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081054196","display_name":"Aubrey J. Cunnington","orcid":"https://orcid.org/0000-0002-1305-3529","observed_orcids":["https://orcid.org/0000-0002-1305-3529"]},"institutions":[{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Aubrey J. Cunnington","raw_affiliation_strings":["Centre for Paediatrics and Child Health, Imperial College London","Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London"],"raw_orcid":"https://orcid.org/0000-0002-1305-3529","affiliations":[{"raw_affiliation_string":"Centre for Paediatrics and Child Health, Imperial College London","institution_ids":["https://openalex.org/I47508984"]},{"raw_affiliation_string":"Section of Paediatric Infectious Disease, Department of Infectious Disease, Imperial College London","institution_ids":["https://openalex.org/I47508984"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5078833722","display_name":"Anna Bachmann","orcid":"https://orcid.org/0000-0001-8397-7308","observed_orcids":["https://orcid.org/0000-0001-8397-7308"]},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I4210115305","display_name":"German Center for Infection Research","ror":"https://ror.org/028s4q594","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210115305","https://openalex.org/I4405256427"]},{"id":"https://openalex.org/I4210157805","display_name":"Centre for Structural Systems Biology","ror":"https://ror.org/04fhwda97","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137251492","https://openalex.org/I159176309","https://openalex.org/I2801876189","https://openalex.org/I315704651","https://openalex.org/I34809795","https://openalex.org/I4210108711","https://openalex.org/I4210124929","https://openalex.org/I4210128097","https://openalex.org/I4210138560","https://openalex.org/I4210153543","https://openalex.org/I4210157805","https://openalex.org/I94402716"]},{"id":"https://openalex.org/I94402716","display_name":"Bernhard Nocht Institute for Tropical Medicine","ror":"https://ror.org/01evwfd48","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I94402716"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Anna Bachmann","raw_affiliation_strings":["Bernhard Nocht Institute for Tropical Medicine","Biology Department, University of Hamburg","Centre for Structural Systems Biology","German Center for Infection Research (DZIF)"],"raw_orcid":"https://orcid.org/0000-0001-8397-7308","affiliations":[{"raw_affiliation_string":"Bernhard Nocht Institute for Tropical Medicine","institution_ids":["https://openalex.org/I94402716"]},{"raw_affiliation_string":"Biology Department, University of Hamburg","institution_ids":["https://openalex.org/I159176309"]},{"raw_affiliation_string":"Centre for Structural Systems Biology","institution_ids":["https://openalex.org/I4210157805"]},{"raw_affiliation_string":"German Center for Infection Research (DZIF)","institution_ids":["https://openalex.org/I4210115305"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":9,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3000,"currency":"USD","value_usd":2500},"apc_paid":{"value":3000,"currency":"USD","value_usd":2500},"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10091","display_name":"Malaria Research and Control","score":0.9984999895095825,"subfield":{"id":"https://openalex.org/subfields/2739","display_name":"Public Health, Environmental and Occupational Health"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10091","display_name":"Malaria Research and Control","score":0.9984999895095825,"subfield":{"id":"https://openalex.org/subfields/2739","display_name":"Public Health, Environmental and Occupational Health"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10554","display_name":"Hemoglobinopathies and Related Disorders","score":9.999999747378752e-05,"subfield":{"id":"https://openalex.org/subfields/2716","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T12178","display_name":"Bird parasitology and diseases","score":0.0,"subfield":{"id":"https://openalex.org/subfields/2405","display_name":"Parasitology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/plasmodium-falciparum","display_name":"Plasmodium falciparum","score":0.9860000014305115},{"id":"https://openalex.org/keywords/var-genes","display_name":"var genes","score":0.8889999985694885},{"id":"https://openalex.org/keywords/pfemp1","display_name":"PfEMP1","score":0.9480000138282776},{"id":"https://openalex.org/keywords/var-gene-expression","display_name":"var gene expression","score":0.7070000171661377},{"id":"https://openalex.org/keywords/var-gene-switching","display_name":"var gene switching","score":0.7089999914169312},{"id":"https://openalex.org/keywords/var2csa","display_name":"VAR2CSA","score":0.9800000190734863},{"id":"https://openalex.org/keywords/in-vitro-culture","display_name":"in vitro culture","score":0.5950000286102295},{"id":"https://openalex.org/keywords/transcriptome","display_name":"transcriptome","score":0.6819999814033508},{"id":"https://openalex.org/keywords/malaria-pathogenesis","display_name":"malaria pathogenesis","score":0.6840000152587891},{"id":"https://openalex.org/keywords/cytoadhesion","display_name":"cytoadhesion","score":0.7950000166893005},{"id":"https://openalex.org/keywords/clinical-isolates","display_name":"clinical isolates","score":0.6489999890327454}],"concepts":[{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.8682906031608582},{"id":"https://openalex.org/C2778371730","wikidata":"https://www.wikidata.org/wiki/Q311383","display_name":"Plasmodium falciparum","level":3,"score":0.7640320062637329},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.7584993839263916},{"id":"https://openalex.org/C207001950","wikidata":"https://www.wikidata.org/wiki/Q141124","display_name":"In vivo","level":2,"score":0.6567937135696411},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6028048396110535},{"id":"https://openalex.org/C202751555","wikidata":"https://www.wikidata.org/wiki/Q221681","display_name":"In vitro","level":2,"score":0.5982571840286255},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.5613057017326355},{"id":"https://openalex.org/C61797465","wikidata":"https://www.wikidata.org/wiki/Q1188986","display_name":"Term (time)","level":2,"score":0.5496307015419006},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.5453192591667175},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5114254355430603},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.49932217597961426},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.4245021641254425},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.28061118721961975},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.18767529726028442},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.1360844075679779},{"id":"https://openalex.org/C2778048844","wikidata":"https://www.wikidata.org/wiki/Q12156","display_name":"Malaria","level":2,"score":0.1090843677520752},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.7554/elife.87726.1","doi":"https://doi.org/10.7554/elife.87726.1","is_oa":true,"landing_page_url":"https://doi.org/10.7554/elife.87726.1","pdf_url":null,"source":{"id":"https://openalex.org/S1336409049","display_name":"eLife","issn_l":"2050-084X","issn":["2050-084X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-a","jufo-2","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310311710","host_organization_name":"eLife Sciences Publications Ltd","host_organization_lineage":["https://openalex.org/P4310311710"],"host_organization_lineage_names":["eLife Sciences Publications Ltd"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"eLife","raw_type":"posted-content"},{"id":"pmh:oai:bib-pubdb1.desy.de:613834","doi":null,"is_oa":true,"landing_page_url":"https://bib-pubdb1.desy.de/search?p=id:%22PUBDB-2024-05640%22","pdf_url":null,"source":{"id":"https://openalex.org/S4377196278","display_name":"Desy Publications Database (Deutsches Elektronen-Synchrotron DESY)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2801876189","host_organization_name":"Deutsches Elektronen-Synchrotron DESY","host_organization_lineage":["https://openalex.org/I2801876189"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"eLife 12, RP87726 (2024). doi:10.7554/eLife.87726","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.7554/elife.87726.1","doi":"https://doi.org/10.7554/elife.87726.1","is_oa":true,"landing_page_url":"https://doi.org/10.7554/elife.87726.1","pdf_url":null,"source":{"id":"https://openalex.org/S1336409049","display_name":"eLife","issn_l":"2050-084X","issn":["2050-084X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-a","jufo-2","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310311710","host_organization_name":"eLife Sciences Publications Ltd","host_organization_lineage":["https://openalex.org/P4310311710"],"host_organization_lineage_names":["eLife Sciences Publications Ltd"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"eLife","raw_type":"posted-content"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.8560000061988831,"display_name":"Good health and well-being"}],"sustainable_development_goals_aurora":[{"id":"https://metadata.un.org/sdg/3","score":0.800000011920929,"display_name":"Good health and well-being"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G102929478","display_name":"Epigenetische Regulation der Antigenvariation im Malariaerreger Plasmodium falciparum","funder_award_id":"433302244","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G2010948218","display_name":null,"funder_award_id":"10.35802/104111","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G2594014618","display_name":null,"funder_award_id":"10.35802/220123","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G2748753893","display_name":"Analyse der Transkriptionsdynamik von Virulenzfaktoren in klinischen Isolaten des\nMalariaerregers Plasmodium falciparum","funder_award_id":"323759012","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G3804957094","display_name":null,"funder_award_id":"104111/Z/14/ZR","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G4219695895","display_name":"Wellcome Trust Centre for Molecular Parasitology.","funder_award_id":"104111","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G4591806611","display_name":null,"funder_award_id":"10.14469/hpc/2232","funder_id":"https://openalex.org/F4320320283","funder_display_name":"Imperial College London"},{"id":"https://openalex.org/G5261330188","display_name":null,"funder_award_id":"10.35802/100993","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G5991770078","display_name":null,"funder_award_id":"BA 5213/3\u20101","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6574263208","display_name":"The cellular and molecular mechanics of malaria parasite invasion of the human erythrocyte.","funder_award_id":"100993/Z/13/Z","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"}],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320319990","display_name":"National Institute for Health and Care Research","ror":"https://ror.org/0187kwz08"},{"id":"https://openalex.org/F4320320283","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10"},{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320336039","display_name":"NIHR Imperial Biomedical Research Centre","ror":"https://ror.org/01kmhx639"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":85,"referenced_works":["https://openalex.org/W339229436","https://openalex.org/W362120134","https://openalex.org/W843541520","https://openalex.org/W1490807989","https://openalex.org/W1556737124","https://openalex.org/W1566484184","https://openalex.org/W1970940629","https://openalex.org/W1971343439","https://openalex.org/W1971406241","https://openalex.org/W1976252707","https://openalex.org/W1976263326","https://openalex.org/W1984347606","https://openalex.org/W2018269643","https://openalex.org/W2021874649","https://openalex.org/W2045273361","https://openalex.org/W2049700891","https://openalex.org/W2052523483","https://openalex.org/W2062155016","https://openalex.org/W2063797600","https://openalex.org/W2072975902","https://openalex.org/W2083788953","https://openalex.org/W2092403586","https://openalex.org/W2095680943","https://openalex.org/W2102684392","https://openalex.org/W2103171514","https://openalex.org/W2106544700","https://openalex.org/W2110029404","https://openalex.org/W2110368176","https://openalex.org/W2110392562","https://openalex.org/W2110905563","https://openalex.org/W2112047656","https://openalex.org/W2116729094","https://openalex.org/W2120873510","https://openalex.org/W2123023013","https://openalex.org/W2124366396","https://openalex.org/W2129744420","https://openalex.org/W2130530163","https://openalex.org/W2134526812","https://openalex.org/W2135621733","https://openalex.org/W2138207763","https://openalex.org/W2139449809","https://openalex.org/W2156841387","https://openalex.org/W2160969485","https://openalex.org/W2166265186","https://openalex.org/W2168255548","https://openalex.org/W2170747616","https://openalex.org/W2179438025","https://openalex.org/W2291086131","https://openalex.org/W2403085872","https://openalex.org/W2411971085","https://openalex.org/W2473661440","https://openalex.org/W2559282936","https://openalex.org/W2581803187","https://openalex.org/W2592811885","https://openalex.org/W2624256924","https://openalex.org/W2624999982","https://openalex.org/W2764044352","https://openalex.org/W2765248711","https://openalex.org/W2766874071","https://openalex.org/W2767590279","https://openalex.org/W2790950849","https://openalex.org/W2800873859","https://openalex.org/W2896134881","https://openalex.org/W2905543223","https://openalex.org/W2906801391","https://openalex.org/W2940285547","https://openalex.org/W2966010956","https://openalex.org/W2973150644","https://openalex.org/W2986984498","https://openalex.org/W2993309155","https://openalex.org/W2997022986","https://openalex.org/W3000010184","https://openalex.org/W3023370818","https://openalex.org/W3087629065","https://openalex.org/W3094458800","https://openalex.org/W3098272856","https://openalex.org/W3140048689","https://openalex.org/W3153549199","https://openalex.org/W3159706041","https://openalex.org/W3191115975","https://openalex.org/W3200979882","https://openalex.org/W4206919410","https://openalex.org/W4214812757","https://openalex.org/W4311462183","https://openalex.org/W4367598674"],"related_works":["https://openalex.org/W6945742208","https://openalex.org/W2102684392","https://openalex.org/W2088459771","https://openalex.org/W2342129779","https://openalex.org/W2912605962","https://openalex.org/W1995803714","https://openalex.org/W1679367724","https://openalex.org/W2163850237","https://openalex.org/W2045273361","https://openalex.org/W2186155429"],"abstract_inverted_index":{"Abstract":[0],"The":[1],"pathogenesis":[2],"of":[3,12,33,38,57,100,114,131,142,145,173,213,215,234,238],"severe":[4],"Plasmodium":[5],"falciparum":[6,18,64],"malaria":[7,149],"involves":[8],"cytoadhesive":[9],"microvascular":[10],"sequestration":[11],"infected":[13],"erythrocytes,":[14],"mediated":[15],"by":[16,28],"P.":[17,63],"erythrocyte":[19],"membrane":[20],"protein":[21],"1":[22,225],"(PfEMP1).":[23],"PfEMP1":[24],"variants":[25],"are":[26,40],"encoded":[27],"the":[29,36,97,123,129,132,143,216,232,235],"highly":[30],"polymorphic":[31],"family":[32],"var":[34,52,86,124,146,160,198],"genes,":[35],"sequences":[37],"which":[39,70],"largely":[41],"unknown":[42],"in":[43,61,126,148,159,167,190,207,247],"clinical":[44,62,109],"samples.":[45,226],"Previously,":[46],"we":[47,79],"published":[48],"new":[49,154],"approaches":[50],"for":[51,85,182],"gene":[53,87,161,193,199],"profiling":[54],"and":[55,89,108,134,201,223,250],"classification":[56],"predicted":[58],"binding":[59],"phenotypes":[60],"isolates":[65,110],"(Wichers":[66],"et":[67,102],"al.,":[68,103],"2021),":[69],"represented":[71],"a":[72,82,112,118],"major":[73],"technical":[74],"advance.":[75],"Building":[76],"on":[77,105,231],"this,":[78],"report":[80],"here":[81],"novel":[83],"method":[84,155],"assembly":[88],"multidimensional":[90],"quantification":[91],"from":[92,177],"RNA-sequencing":[93],"that":[94],"even":[95],"outperforms":[96],"earlier":[98],"approach":[99],"Wichers":[101],"2021":[104],"both":[106],"laboratory":[107],"across":[111],"combination":[113],"metrics.":[115],"It":[116],"is":[117],"powerful":[119],"tool":[120],"to":[121,138,156,166,184,243],"interrogate":[122],"transcriptome":[125,133,218],"context":[127],"with":[128,210],"rest":[130],"can":[135],"be":[136],"applied":[137,152],"enhance":[139],"our":[140,178],"understanding":[141],"role":[144],"genes":[147],"pathogenesis.":[150],"We":[151],"this":[153],"investigate":[157],"changes":[158,189],"expression":[162,194,212],"through":[163],"early":[164],"transition":[165],"vitro":[168],"culture,":[169,208],"using":[170,239],"paired":[171,220],"sets":[172],"ex":[174,221],"vivo":[175,222,248],"samples":[176],"previous":[179],"study,":[180],"cultured":[181,241],"up":[183],"three":[185],"generations.":[186],"In":[187],"parallel,":[188],"non-polymorphic":[191],"core":[192,217],"were":[195,205],"investigated.":[196],"Unpredictable":[197],"switching":[200],"convergence":[202],"towards":[203],"var2csa":[204],"observed":[206],"along":[209],"differential":[211],"19%":[214],"between":[219],"generation":[224],"Our":[227],"results":[228],"cast":[229],"doubt":[230],"validity":[233],"common":[236],"practice":[237],"short-term":[240],"parasites":[242],"make":[244],"inferences":[245],"about":[246],"phenotype":[249],"behaviour.":[251]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2026-10-14T16:39:01.820549","created_date":"2023-06-09T00:00:00"}
