{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Betty Ying-Wen Chung"],"instrument_platform":["NextSeq 500"],"study_type":["RNA-seq of coding RNA"],"organism":["Mus musculus"],"species":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14159"],"description":["Parallel RNA- and Ribo-Seq of bone marrow derived macrophages derrived from WT and TLR4-/- mice across a Salmonella infection timecourse to assess both the transcriptional and translational response to infection. Cells were infected with WT or ΔprgJ Salmonella Typhimurium or mock infected and harvested at various timepoints post infection."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - Cells were lysed in buffer containing cycloheximide and chloramphenicol, and lysates were split for RNA-Seq and Ribo-Seq.","Sample Collection - Macrophages were differentiated from cells harvested from mouse bone marrow. These were then infected with WT or ΔprgJ Salmonella Typhimurium or mock infected.","Sequencing - Sequencing was performed in house using NextSeq-500","Library Construction - For Ribo-Seq, lysates were treated with RNase I and fragments protected from digestion by the ribosome were purified. For RNA-Seq, total cellular RNA was fragmented by alkaline hydrolysis. Both produce short RNA fragments, from which libraries were generated."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Betty Ying-Wen Chung"],"additional_accession":[]},"is_claimable":false,"name":"Ribosome profiling and RNA-seq of WT and TLR4-/- BMDM infected with Salmonella","description":"Parallel RNA- and Ribo-Seq of bone marrow derived macrophages derrived from WT and TLR4-/- mice across a Salmonella infection timecourse to assess both the transcriptional and translational response to infection. Cells were infected with WT or ΔprgJ Salmonella Typhimurium or mock infected and harvested at various timepoints post infection.","dates":{"release":"2026-09-11T00:00:00Z","modification":"2026-09-11T12:09:11.14Z","creation":"2024-06-07T10:31:52.091Z"},"accession":"E-MTAB-14159","cross_references":{"ENA":["ERP160955"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003738","EFO_0004184"]}}