Project description:To characterize the transcriptional response of chicken macrophage-like cells to interferon beta stimulation, HD11 cells were mock-treated or stimulated with recombinant chicken interferon beta. Total RNA was extracted from three independent biological replicates per group and subjected to RNA sequencing. Differential expression analysis was performed to identify interferon beta-responsive genes in HD11 cells.
Project description:We performed bulk RNA sequencing to characterize transcriptional responses in HD11 cells under two experimental conditions: Mock and NDV. Each condition included three biological replicates. This study was designed to investigate the effect of Newcastle disease virus infection on host gene expression in chicken macrophage-like HD11 cells. Raw sequencing data and processed expression matrices are included in this submission.
Project description:RNA samples from chicken (Gallus gallus) embryonic fibroblasts (sample ID: ES90) as well as from the HD11 chicken macrophage cell line (sample ID: ES91) were sequenced at the National Institutes of Health Intramural Sequencing Center (NISC) using the Illumina GAIIx technology running the standard CASAVA/ELAND pipeline.
Project description:We used LPS-stimulated chicken HD11 macrophage-like cell as a model to identify the key transcription factors involved in transcriptome regulation responsible for SeMC treatment. RNA-seq identified 3,263 transcripts significantly differentially expressed between the SeMC treated group and the control group, and 1,344 transcripts significantly differentially expressed between LPS+SeMC and LPS treated group (FDR < 0.05, FDR > 1.5). Bioinformatic analysis revealed that six transcription factors, NFKB2, RFX2, E2F5, ETV5, BACH1, and E2F7 were candidate genes for transcriptome regulation in SeMC treated HD11 cells.
Project description:We used LPS-stimulated chicken HD11 macrophage-like cell as a model to identify the key transcription factors involved in transcriptome regulation responsible for Procyanidin B1 treatment. RNA-seq identified 1,384 transcripts significantly differentially expressed between the Procyanidin B1 treated group and the control group, and 696 transcripts significantly differentially expressed between LPS+Procyanidin B1 and LPS treated group (FDR < 0.05, FDR > 1.5). Bioinformatic analysis revealed that five transcription factors, FOSL1::JUND, CREB1, ZNF467, STAT2, and HIF1A were candidate genes for transcriptome regulation in Procyanidin B1 treated HD11 cells.
Project description:HD11 cells were stimulated with 1 ug/ml endotoxin from ST-798 for 1, 2, 4 and 8 hours Cells were harvested at 1, 2, 4 and 8 hrs post stimulation and RNA was isolated from these cells and microarray was conducted for these RNA samples using affymetrix genechips
Project description:We infected HD11 macrophages with Salmonella Typhimurium, followed by chemical proteomic analysis of deubiquitinases by using ubiquitin-specific active-site probe.
