Project description:Cognitively normal brains are compared to sporadic AD and Down syndrome brains with AD for comparison of two different forms of Alzheimer's disease
Project description:C57BL/6 Mouse cortex samples at 2-months of age, both sexes, exposed to one acute 5-hour dose of 100ug/m3 of air pollution from diesel exhaust particles or dust from the World Trade Center collapse. C57BL/6 female mouse cortex exposed to one acute 4-hour dose of 500ug/m3 of woodsmoke.
Project description:U87 cells overexpressing ApoE isoforms were treated with sulforaphane for 18 hours for comparison with a DMSO control. ApoEChimp is on the ApoE4 backbone but contains R61T which is thought to be the isoform defining residue.
Project description:The actin cytoskeleton is a highly conserved structural network that supports diverse cellular processes, but its contribution to organismal aging is not well understood. This project investigates how genetic and pharmacological perturbations of actin and actin-binding proteins influence global gene expression and aging phenotypes in Caenorhabditis elegans. Whole-animal RNA interference was used to knock down key actin regulatory genes, including arx-2 (Arp2/3 complex), unc-60 (cofilin), and lev-11 (tropomyosin). Here Bulk RNA sequencing was performed to assess transcriptional responses to actin cytoskeletal disruption using genetic knockdown (RNAi) of actin-binding proteins and actin de/stabilizing molecules. These datasets capture transcriptomic signatures associated with actin dysfunction, aging trajectories, and stress responses, and provide a resource for exploring the molecular links between cytoskeletal integrity and longevity regulation.
Project description:Longevity and stress resilience require coordinated gene expression across tissues. We found that neuronal overexpression of the chromatin reader BET-1 in C. elegans extends lifespan and enhances stress resistance through cell non-autonomous signaling. Neuronal BET-1 triggers a neurotransmitter-dependent activation of the conserved transcription factor HSF-1 in the intestine, promoting proteostasis, oxidative stress resistance, and immune defense. To uncover the molecular mechanisms underlying this systemic response, we performed bulk RNA sequencing, which revealed coordinated activation of gene networks involved in heat-shock response, proteostasis, and pathogen resistance. These transcriptomic signatures define the downstream effectors of neuronal BET-1 and highlight distinct regulatory mechanisms mediated by hsf-1 and daf-16. Together, these findings establish BET-1 as a key regulator of inter-tissue communication and demonstrate the critical role of RNA-seq in identifying the transcriptional programs that couple neuronal signaling to organismal longevity and resilience.
Project description:SAT1 is the mammalian polyamine acetylation enzyme. In order to characterize the transcriptional alterations resulting from SAT1 ablation in tumor cells in vivo, we knocked out SAT1 in a genetic glioma model (PTEN/P53/NF1 knockout) and performed RNAseq.
Project description:Colon cancer patient-derived xenograft (PDX) models were processed to single cells and sorted by FACS (BD FACS Aria II) for ALDH activity (Aldefluor assay) and DAPI. ALDH Negative and ALDH Positive cells from each PDX model were collected and lysed in RLT buffer and processed for RNA using the RNeasy Mini Plus RNA extraction kit (Qiagen). Samples were processed using Illumina’s TrueSeq RNA protocol and sequenced on an Illumina HiSeq 2500 machine as 2x125nt paired-end reads. Reads were mapped to the human reference genome (assembly hg19) using the STAR aligner (version 2.4.2a). Total read counts per gene were computed using the program “featureCounts” (version 1.4.6-p2) in the “subread” package, with the gene annotation taken from Gencode (version 19).
Project description:The transcriptomic innate immune response derived from human nasal epithelial cells depends on how Streptococcus pneumoniae colonises the nasopharynx. This study compared three wild type strains and one deficient in pneumolysin to explore the pathways of epithelial activation following a three hour infection in vitro.
Project description:We wanted to explore the function of MG53 in THP-1 cells, so we treated THP-1 cells with control b-gal or MG53 adenovirus, and using PMA to induce THP-1 differentiated into macrophages. Thus exploring how MG53 affect macrophages.
Project description:We wanted to explore the function of MG53 in THP-1 cells, so we treated THP-1 cells with control b-gal or IRF7 adenovirus, and using PMA to induce THP-1 differentiated into macrophages. Thus exploring how MG53 affect macrophages.