Project description:Enterotoxigenic Escherichia coli (ETEC) is a globally prevalent cause of diarrhea. We report the first gene expression analysis of the human host response to experimental challenge with ETEC.
Project description:Generation of single cell and single nuclei transcriptomic data of post-mortem tissues from a Malawi cohort. We aim to explore differences in the immune response between Covid-19, Non-Covid19 LRTD (lower respiratory tract disease) and no-LTRD at the single cell level from lung, nasal and blood. Autopsies were conducted through minimally invasive autopsy using needle-biopsy. Samples were then processed with a 10X Chromium in Blantyre, Malawi. Some samples were run individually and others pooled. Pooled samples were split using single nucleotide polymorphisms or through hashtag oligonucelotides. Data processing and analysis was performed in R using the Seurat package.
Project description:The experiment contains ChIP-seq data for Enterotoxigenic Escherichia coli strain H10407 transformed with plasmid pRGM9818. The strain was grown at 37 degrees in LB medium and crosslinked with 1 % (v/v) formaldehyde. After sonication, to break open cells and fragment DNA, immunoprecipitations were done using antibodies against MarA, MarR or the RNA polymerase sigma 70 subunit. Libraries were prepared using DNA remaining after immunoprecipitation. Note that the MarR immunoprecipitations were not successful but the data served as a useful control for non-specifically immunoprecipitated DNA sequences.
Project description:The experiment contains ChIP-seq data for Enterotoxigenic Escherichia coli strain H10407 transformed with plasmids pAMNF (encoding an N-terminal MarR-3xFLAG fusion) or pAMNM (encoding an N-terminal MarR-8xmyc fusion). The cells was cultured at 37 degrees in LB medium and crosslinked with 1 % (v/v) formaldehyde. After sonication, to break open cells and fragment DNA, immunoprecipitations were done using an anti-FLAG antibody (i.e. the strain encoding the MarR-8xmyc fusion was used as a control). Libraries were prepared using DNA remaining after immunoprecipitation.
Project description:Complete data set for "Molecular and immunological interrogation of a live-attenuated enterotoxigenic Escherichia coli vaccine highlights features unique to wild type infection"
2019-07-23 | MSV000084121 | MassIVE
Project description:Mycobacterium tuberculosis population survey - Blantyre, Malawi
Project description:To better understand the molecular effects of Enterotoxigenic Escherichia coli (ETEC) F4ab/ac infection, we performed a genome-wide comparison of the changes in DNA methylation in ETEC F4ab/ac infected porcine intestinal epithelial cells. Our data provides further insight into the epigenetic alterations of ETEC F4ab/ac infected porcine intestinal epithelial cells and may advance the identification of biomarkers and drug targets for predicting susceptibility to and controlling ETEC F4ab/ac induced diarrhea.
Project description:This SuperSeries is composed of the following subset Series: GSE31804: Expression data of enterotoxigenic (ETEC) isolate E24377A GSE31805: Global transcriptomics of enterotoxigenic E. coli strain E24377A Refer to individual Series
