{"database":"ENA","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Fastqsanger.gz":["ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR872/009/SRR8723359/SRR8723359.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR872/005/SRR8723355/SRR8723355.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR872/006/SRR8723356/SRR8723356.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR872/004/SRR8723354/SRR8723354.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR872/007/SRR8723357/SRR8723357.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR872/008/SRR8723358/SRR8723358.fastq.gz"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Matthew Welch, Molecular and Cell Biology, University of California, Berkeley"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA526887"],"scientific_name":["Mus musculus"],"long_description":["We report transcript abundance in murine bone marrow-derived macrophages (BMDMs) upon Rickettsia parkeri infection and treatment with type I interferon (IFN-I). Infections and IFN-I treatment were performed in parallel between WT BMDMs and BMDMs lacking genes encoding interferon-responsive factor (IRF) transcription factors, including IRF1, IRF5, and double mutant cells lacking both IRF3 and IRF7. Control cells were uninfected and not treated with IFN-I. The abundance of transcripts between these cells can be compared in order to identify genes specifically regulated by each IRF upon IFN-I treatment. Overall design: Examination of a total of 6 BMDM populations."],"repository":["ENA"],"description_synonyms":["Rickettsia infection, SMRZ, Immature Reticulocyte Fraction, Materials, Monocyte Derived Macrophages, RNA-seq, Gene, Monocyte Derived, infections, Cistrons, Rickettsia, Rickettsia infectious disease, Measurement of Immature Reticulocyte Fraction, tick-borne rickettsiosis, Rickettsia disease or disorder, Rickettsial infectious disease, Monocyte-Derived, Rickettsiosis, rickettsiosis, Rickettsiae disease, medulla ossium, Marrow, medulla ossea, Rickettsia Infections, Rickettsial disease, MURF1, Whole Transcriptome Shotgun Sequencing, Genetic Materials, MURF2, Yellow, Type I, interferon type I, Genetic Material, IRF, Monocyte-Derived Macrophages, Macrophage, flea-borne rickettsiosis, infection, Yellow Marrow, Interferons, Genetic, IFN type I, medullary bone, medulla of bone, Macrophages, Interferons Type I, mite-borne rickettsiosis, Bone Marrow Derived Macrophages, Bone Marrow-Derived Macrophage, Red Marrow, Bone Marrow-Derived, Monocyte-Derived Macrophage., Rickettsia caused disease or disorder, Material, Type I Interferon, Rickettsial infectious disorder, Type I Interferons, Bone Marrow-Derived Macrophages, Red, Cistron, RNF28, Interferon, Bone"],"name_synonyms":["Rickettsia infection, SMRZ, Immature Reticulocyte Fraction, Materials, Monocyte Derived Macrophages, RNA-seq, Gene, Monocyte Derived, infections, Cistrons, Rickettsia, Rickettsia infectious disease, Measurement of Immature Reticulocyte Fraction, tick-borne rickettsiosis, Rickettsia disease or disorder, Rickettsial infectious disease, Monocyte-Derived, Rickettsiosis, rickettsiosis, Rickettsiae disease, medulla ossium, Marrow, medulla ossea, Rickettsia Infections, Rickettsial disease, MURF1, Whole Transcriptome Shotgun Sequencing, Genetic Materials, MURF2, Yellow, Type I, interferon type I, Genetic Material, IRF, Monocyte-Derived Macrophages, Macrophage, flea-borne rickettsiosis, infection, Yellow Marrow, Interferons, Genetic, IFN type I, medullary bone, medulla of bone, Macrophages, Interferons Type I, mite-borne rickettsiosis, Bone Marrow Derived Macrophages, Bone Marrow-Derived Macrophage, Red Marrow, Bone Marrow-Derived, Monocyte-Derived Macrophage., Rickettsia caused disease or disorder, Material, Type I Interferon, Rickettsial infectious disorder, Type I Interferons, Bone Marrow-Derived Macrophages, Red, Cistron, RNF28, Interferon, Bone"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq reveals genes regulated by type I interferon during Rickettsia infection in WT and Irf-deficient bone marrow-derived macrophages","description":"RNA-seq reveals genes regulated by type I interferon during Rickettsia infection in WT and Irf-deficient bone marrow-derived macrophages","dates":{"last_updated":"2025-09-24","first_public":"2019-07-05"},"accession":"PRJNA526887","cross_references":{"GEO":["GSE128211"],"taxon":["10090"]}}