Gene expression data from mouse tracheal cells before and 48hrs after SO2 injury
Ontology highlight
ABSTRACT:
ORGANISM(S): Mus musculus
SUBMITTER: Xia Gao
PROVIDER: E-GEOD-69058 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Similar Datasets
Project description:The conducting airway epithelium of the rodent and human lung is made up of about equal proportions of ciliated and secretory cells. In addition, in regions where the epithelium is pseudostratfied, ~30% of the epithelium consists of undifferentiated basal cells (BCs). Evidence suggests that these BCs are multipotent stem cells that can self renew over the long term and give rise to both ciliated and secretory lineages. The goal of this project is to identify cellular and molecular mechanisms by which the basal cells normally maintain the epithelium and repair it after injury. We used Affymetrix microarray analysis to compare transcripts in tracheal epithelium before and after SO2 injury. Mice tracheal epithelium and mesenchyme were separate for RNA extraction before and 48hrs after SO2 injury. Cells from tracheas of 4 male C57Bl/6 mice were pooled for each biological experiment. The experiments were repeated three times for triplicate samples.
2016-07-03 | E-GEOD-69056 | biostudies-arrayexpress
Project description:The conducting airway epithelium of the rodent and human lung is underlaid by mesenchymal cells that include vasculature, smooth muscle, fibroblasts and cartilage. The goal of this project is to identify cellular and molecular changes in the mesenchyme after injury to the epithelium by exposure to SO2 and which may participate in repair of the epithelium We used Affymetrix microarray analysis to compare transcripts in tracheal mesenchyme before and after SO2 injury. Mice tracheal epithelium and mesenchyme were separate for RNA extraction before and 48hrs after SO2 injury. Sample from 4 mice were pooled for each biological experiment. The experiments were repeated three times for triplicate samples.
2016-07-03 | E-GEOD-69057 | biostudies-arrayexpress
Project description:The transcription factor 4 (Tcf4) protein, which is encoded by the Tcf7l2 (transcription factor 7-like 2) gene, plays a key role in maintaining intestinal homeostasis, stem cell self-renewal and epithelial cell differentiation. Tcf4 has been identified as a key regulator of Paneth cell function in small intestinal crypts. It controls the expression of antimicrobial peptides and other effector molecules that contribute to the maintenance of the intestinal microbiota and protection against intestinal pathogens. Depletion of Tcf4 in mouse intestinal epithelial cells leads to loss of proliferating cells and dramatic changes in the morophology of the intestinal epithelum. To examine Tcf4 function in more detail, we used the Ki67-RFP Tcf7l2-flox/flox Villin-CreERT2 mouse strain. In this strain, proliferating cells are marked by expression of red fluorescent protein (RFP) and Tcf4 depletion from intestinal epithelial cells is accomplished by administration of tamoxifen. After 7 days, small red structures, i.e. \\"escaped crypts\\", appear in the epithelium, marking proliferative zones that appear to have escaped Tcf4 deletion. We performed gene expression profiling of RFP+ cells from these \\"escaped crypts\\" and from crypts isolated from wild-type epithelium.
2026-06-29 | E-MTAB-13606 | biostudies-arrayexpress
Project description:We performed microarray analysis to assess changes in gene expression in dysplastic lesions in the mouse oesophagus versus adjacent normal epithelium. To induce tumor formation, animals were treated with the tobacco-derived carcinogen DEN (diethylnitrosamine) in drinking water 3 times a week for 56 days. Subsequently, Sorafenib was administered by ip injection as a solution at 10 mg/ml for 28 days. RNA was isolated from 9 HGD (high grade dysplasia) samples and 9 control samples of adjacent normal epithelium from the same animal (n= 9 samples from a total of 6 animals). Hybridisation was performed on a Mouse Whole Genome-6 v2 Illumina array.
2016-07-06 | E-MTAB-4244 | biostudies-arrayexpress
Project description:Tumor Associated Calcium Signal Transducer 2 (TACSTD2) is one of the cancer-related genes whose overexpression correlates with tumor progression and invasiveness in human colorectal cancer. TACSTD2 gene encodes for a transmembrane glycoprotein TROP2, which is implicated in altered expression of epithelial-mesenchymal transition (EMT) markers and may play a role in metastasis formation. To determine how TROP2 affects aberrant tumor cell signaling, we isolated early adenoma cells from the mouse small intestine 6 weeks after disruption of the Adenomatous polyposis coli (Apc) gene, one of the first steps in the development of colorectal cancer in human. We performed expression profiling of Trop2+ and Trop2- tumor cells and, in addition, non-tumor cells of the intestinal epithelium, including predominantly differentiated cells.
2022-11-29 | E-MTAB-11382 | biostudies-arrayexpress
Project description:The T-cell factor 4 (Tcf4) protein (encoded by the Tcf7l2 gene) is a nuclear transcription regulator, which plays a key role in maintaining intestinal homeostasis, stem cell self-renewal and epithelial cell differentiation. Tcf4 has been identified as a crucial regulator of Paneth cell function in small intestinal crypts. It controls the expression of antimicrobial peptides and other effector molecules that contribute to the maintenance of the gut microbiota and protection against intestinal pathogens. The Defa6 promoter is active in adult Paneth cells and depletion of Tcf4 in these cells leads to loss of lysozyme production, altered morphology and mislocalization of these cells with the strongest phenotype in the ileum. To further investigate the function of Tcf4 in Paneth cells, we employed the Rosa26-tdTomato Tcf7l2-wt/wt Defa6-iCre mouse strain. In this strain, cells with an active Defa6 promoter are marked by expression of a red fluorescent protein (tdTomato). In parallel, heterozygous or homozygous deletion of the Tcf4 protein was obtained in Tcf7l2-flox/wt and Tcf7l2-flox/flox littermates, respectively. We performed gene expression profiling of Defa6-tdTomato+ cells from the distal part of the small intestine.
2026-05-01 | E-MTAB-13730 | biostudies-arrayexpress
Project description:Tumor Associated Calcium Signal Transducer 2 (TACSTD2) is one of the cancer-related genes whose overexpression correlates with tumor progression and invasiveness in human colorectal cancer. TACSTD2 gene encodes for a transmembrane glycoprotein TROP2, which is implicated in altered expression of epithelial-mesenchymal transition (EMT) markers and may play a role in metastasis formation. To monitor the onset of TROP2 in hyperplastic cells and its effect on aberrant signaling potentially leading to tumor growth, we isolated epithelial cells from the mouse small intestine 7 days after disruption of the Adenomatous polyposis coli (Apc) gene. Loss of APC tumor suppressor function is the most common initial step in the development of colon cancer in humans. In the mice, the epithelial hyperproliferation occurs within a few days after Apc disruption, accompanied by the formation of ectopic crypts, followed by the formation of microadenomas over time. We performed expression profiling of Trop2+ and Trop2- hyperproliferating cells and, in addition, non-proliferating cells of the intestinal epithelium, including predominantly differentiated cells.
2022-11-29 | E-MTAB-11377 | biostudies-arrayexpress
Project description:The peptide-level analysis of proteome and secretome changes of mouse trachea cells upon denatonium treatment (in comparison to Ringer lactate solution control).
2022-08-11 | PXD018170 | Pride
Project description:We previously identified multipotent stem cells within the lamina propria of the human olfactory mucosa, located in the nasal cavity. We also demonstrated that this cell type differentiates into neural cells and improves locomotor behavior after transplantation in a rat model of Parkinsonâs disease. Yet, next to nothing is known about their specific stemness characteristics. We therefore devised a study aiming to compare olfactory lamina propria stem cells from 4 individuals to bone marrow mesenchymal stem cells from 4 age- and gendermatched individuals. Using pangenomic microarrays and immunostaining with 34 cell surface marker antibodies, we show here that olfactory stem cells are closely related to bone marrow stem cells. However, olfactory stem cells exhibit also singular traits. By means of techniques such as proliferation assay, cDNA microarrays, RT-PCR, in vitro and in vivo differentiation, we report that, when compared to bone marrow stem cells, olfactory stem cells display i) a high proliferation rate; ii) a propensity to differentiate into osseous cells and iii) a disinclination to give rise to chondrocytes and adipocytes. Since peripheral olfactory stem cells originate from a neural crest-derived tissue and, as shown here, exhibit an increased expression of neural cellrelated genes, we propose to name them olfactory ecto-mesenchymal stem cells (OE-MSC). Further studies are now required to corroborate the therapeutic potential of OE-MSCs in animal models of bone and brain diseases. Keywords: cell type comparison Expression profiles of olfactory ectomesenchymal stem cells, bone marrow MSC, periosteal cells, neural progenitors, and synovial fibroblasts were compared against each other and with different lineages of purified hematopoietic cells from bone marrow to characterise human olfactory ectomesenchymal stem cells molecularly
2010-10-08 | E-GEOD-24598 | biostudies-arrayexpress
Project description:The T-cell factor 4 (Tcf4) protein (encoded by the Tcf7l2 gene) is a nuclear transcription regulator, which plays a key role in maintaining intestinal homeostasis, stem cell self-renewal and epithelial cell differentiation. Tcf4 has been identified as a crucial regulator of Paneth cell function in small intestinal crypts. It controls the expression of antimicrobial peptides and other effector molecules that contribute to the maintenance of the gut microbiota and protection against intestinal pathogens. The Defa6 promoter is active in adult Paneth cells and depletion of Tcf4 in these cells leads to loss of lysozyme production, altered morphology and mislocalization of these cells with the strongest phenotype in the ileum. For deeper understanding of the Tcf4 function in the Paneth cell lineage, we employed the Rosa26-tdTomato Tcf7l2-wt/wt Defa6-iCre mouse strain. In this strain, cells with an active Defa6 promoter are marked by expression of a red fluorescent protein (tdTomato). In parallel, homozygous depletion of the Tcf4 protein was obtained in Tcf7l2-flox/flox littermates. We performed the single cell gene expression profiling of Defa6-tdTomato+ cells from the middle part of the small intestine.
2026-06-29 | E-MTAB-14489 | biostudies-arrayexpress