{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Dr. Satish Mishra"],"organism":["Plasmodium berghei"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16953"],"description":["we perform RNA sequencing to characterize host and parasite transcriptomic changes in hepatocytes infected with Plasmodium berghei GAPs lacking either Stearoyl-CoA Desaturase (Scd) or Sporozoite Conserved Orthologous Transcript 1 (Scot1). Both knockouts elicit distinct host transcriptional responses, prominently affecting genes involved in cytoskeletal organization, cell adhesion, signaling, and lysosomal function. Scot1-deficient parasites exhibit reduced or no expression of Scd, indicating a possible regulatory link."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sequencing - libraries were paired-end sequenced on an Illumina 4000 sequencer","Sample Collection - HepG2 cells were seeded over night and infected with Genetically modified parasites to assess the exoerythrocytic phases.","Library Construction - RNA sequencing libraries were prepared with an  Illumina-compatible NEBNext® Ultra™ II Directional RNA Library Prep Kit.","Nucleic Acid Extraction - Qiagen RNeasy micro kit and treated with DNase I in the  column as per manufacturer’s instructions"],"figure_sub":["MIAME Score","Organization","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - minimum counts per million (CPM) threshold of 0.5. Data normalization and transformation were performed using the EdgeR package, applying a log2(CPM + C)"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina HiSeq 4000"],"study_type":["RNA-seq of total RNA"],"species":["Plasmodium berghei"],"pubmed_authors":["Dr. Satish Mishra"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomic dissection of host-parasite interactions reveals metabolic rewiring in hepatocytes infected with Plasmodium berghei GAPs","description":"we perform RNA sequencing to characterize host and parasite transcriptomic changes in hepatocytes infected with Plasmodium berghei GAPs lacking either Stearoyl-CoA Desaturase (Scd) or Sporozoite Conserved Orthologous Transcript 1 (Scot1). Both knockouts elicit distinct host transcriptional responses, prominently affecting genes involved in cytoskeletal organization, cell adhesion, signaling, and lysosomal function. Scot1-deficient parasites exhibit reduced or no expression of Scd, indicating a possible regulatory link.","dates":{"release":"2026-05-15T00:00:00Z","modification":"2026-05-15T01:00:42.045Z","creation":"2026-04-23T11:35:38.101Z"},"accession":"E-MTAB-16953","cross_references":{"EFO":["EFO_0002944","EFO_0004170","EFO_0009653","EFO_0005518","EFO_0003816","EFO_0004184"]}}