Project description:To identify key genes that define surface airway epithelial (SAE) basal cells, we FACS isolated basal, ciliated, and club cell populations as previously reported (Zhao et al., 2014; PMID: 25043474) and performed microarray analysis on isolated mRNA. For fractionating SAE into basal, club, and ciliated populations, cells were stained with EpCAM-PECy7 (eBiosciences), GSIβ4-FITC (Sigma), SSEA1-Alexa Fluor® 647 (BioLegend), and CD24-PE (BD Pharmingen) for 30 minutes on ice as previously described (Zhao et al., 2014), prior to FACS. Basal cells were considered EpCAM+ and GSIβ4+. Secretory cells were considered EpCAM+ and SSEA1+. Ciliated cells were considered EpCAM+, GSIβ4- and CD24+. Primary SAE cells were harvested from C57BL/6 mice and sorted into basal, ciliated, and club cell populations for the purpose of identifying enrichment of transcripts specific to each cell type population.
Project description:Affymetrix single nucleotide polymorphism (SNP) array data were used to study genes that underlie human adaptation to climatic stress, with a focus on genetic changes that lead to long-term cold tolerance. Siberia provides the best opportunity to investigate the genetic mechanisms of cold resistance because of the long-term ancestry of indigenous populations in some of the coldest climates on earth. While much of northern Europe was under ice throughout the last glacial period, Siberia remained relatively ice free, and archaeological evidence suggests that people inhabited this region for more than 40,000 years. We gathered SNP data from ~200 individuals from 15 indigenous Siberian populations that inhabit a range of arctic climates and compare their patterns of genetic variation with those from other world populations from warmer climates.Particular attention is paid to regions containing genes that have been previously implicated in cold adaptation or that function in known pathways connected to energy metabolism or cold adapted phenotypes (e.g., those involved in basal metabolic rate and brown adipose tissue function).
Project description:This experiment has been annotated by TAIR (http://arabidopsis.org). We examined transcript profiles triggered by three different arabidopsis R genes that recognize distinct Peronospora parasitica isolates. Experimenter name = Thomas Eulgem Experimenter phone = 43 1 4277 54622 Experimenter fax = 43 1 4277 9546 Experimenter department = Institute of Microbiology and Genetics Experimenter address = Institute of Microbiology and Genetics Experimenter address = Dr. Bohrgasse 9 Experimenter address = Vienna Experimenter zip/postal_code = A-1030 Experimenter country = Austria Keywords: strain_or_line_design
Project description:Iridocorneal endothelial (ICE) syndrome is a rare ocular disease affecting the anterior segment, characterized by progressive deterioration leading to significant complications, including corneal endothelial compensation and secondary glaucoma. The unclear etiology of this syndrome limits clinical management to symptomatic interventions. The abnormality of corneal endothelial cells (ICE cells) in patients with ICE syndrome is considered the initial step of this disease. This study endeavors to elucidate the transcriptomic profiles of ICE cells utilizing smart-seq2 single-cell RNA sequencing techniques.
Project description:Semiconductor sequencing of alkaline degraded total RNA from Pyrococcus furiosus annotated for ”The 23S ribosomal RNA from Pyrococcus furiosus is circularly permuted” published in Frontiers in Microbiology”