Homo sapiens
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA374543 | ENA |
REPOSITORIES: ENA
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Project description:This study investigated possible molecular changes in the oral mucosa of head and neck squamous cell carcinoma patients submitted to chemoradiotherapy with and without low-level laser therapy by cDNA microarray analysis.
2017-02-14 | GSE94833 | GEO
Project description:The molecular mechanisms of clinical response or resistance to therapy were evaluated in colorectal cancer patients in a prospective biomarker discovery project. Rectal adenocarcinomas, biopsied before (diagnostic biopsy) and after (surgical resection) pre-operative short-course radiotherapy [RT] or 5-flurouracil (5-FU)-based chemoradiotherapy [CRT], were profiled using Affymetrix HGU133 Plus 2.0 microarrays. Tumour tissues from untreated controls at diagnosis and surgical resection were used to identify treatment-independent gene expression changes. Candidate resistance biomarkers were identified in this pilot study for validation in a larger cohort.
2009-11-10 | E-MEXP-1901 | biostudies-arrayexpress
Project description:cDNA microarray analysis of human keratinocytes irradiated by ELF-EMF
| PRJNA93451 | ENA
Project description:To further development of gene expression approach to squamous carcinoma, we have employed whole genome microarray expression profiling as a discovery platform to identify genes with the potential to reveal the relation between oral squamous carcinoma (OSCC) and human normal oral mucosal epithelial keratinocytes.
2020-03-06 | GSE146483 | GEO
Project description:Studying Gene Expression Profiles of UV-Irradiated Human Keratinocytes by cDNA Microarray
| PRJNA94867 | ENA
Project description:Rationale: Steroids are the mainstay of asthma therapy. However, it is unclear whether the benefits of steroids in asthma are merely based on anti-inflammatory properties. Steroids may also alter gene expression of airway smooth muscle (ASM). Hypothesis and Aims: We hypothesized that the transcriptomic profile of the ASM layer in endobronchial biopsies of atopic asthma patients changes by oral steroid therapy. First, we examined the change in ASM transcriptomic profile in endobronchial biopsies after 14 days of oral steroid therapy. Second, we investigated the association between changes in ASM transcriptomic profile and airway function. Methods: 12 atopic steroid-free asthma patients were included in this double-blind intervention study. Endobronchial biopsies were taken before and after 14 days of oral prednisolon (n=6) or placebo (n=6). RNA of laser-dissected ASM was sequenced (RNA-Seq) using the GS FLX+ System (454/Roche). Gene networks were identified using Ingenuity Pathway Analysis. RNA-Seq reads were assumed to follow a negative binomial distribution. At the current sample size the estimated false discovery rate was approximately 3%. Results: 15 genes were significantly changed by 14 days of oral prednisolon. 2 of these genes (FAM129A, SYNPO2) were associated with the methacholine PC20 (r=0.637, p=0.035; r=0.662, p=0.027). Pathway analysis revealed 3 gene networks that were associated with cellular functions including cellular growth, proliferation, and development. Conclusion: Oral prednisolon changes the gene expression profile of the ASM layer in asthma. This indicates that steroids also exert effects on the transcriptomic level of ASM in addition to their anti-inflammatory properties, which can promote improved airway function. The current randomized, double-blind, parallel, placebo-controlled intervention study comprised 4 visits. At visit 1, asthma patients were screened according to the in- and exclusion criteria prior to enrollment. Additionally, spirometry and methacholine bronchoprovocation test were performed. At visit 2, FEV1 reversibility was measured and endobronchial biopsies were collected during a bronchoscopy. Asthma patients were then prescribed oral prednisolon at a dose of 0.5 mg/kg per day or placebo for 14 consecutive days. The dosage and dosing scheme was based on international recommendations for the treatment of acute exacerbations [1]. On the 11th day after visit 2, the patients visited the lung function laboratory for spirometry and methacholine bronchoprovocation test. Finally, at visit 4 (15th day after visit 2) FEV1 reversibility was measured and endobronchial biopsies were collected by bronchoscopy. Airway smooth muscle was collected from the biopsies by laser capture microdissection and total RNA isolated. cDNA was prepared using the Ovation RNA-Seq System (NuGEN). RNA-Seq was performed using the GS FLX+ instrument (454/Roche). Sequence reads were mapped against the human genome (hg19; UCSC). Comparison of the numbers of reads per gene between the prednisolon and placebo study group was carried out with the R package DESeq.
2013-05-15 | E-GEOD-40996 | biostudies-arrayexpress
Project description:Protromics analysis of 20 FFPE colorectalcancer tumors obtained from 10 patients before and after chemoradiotherapy. The patients are divided in two groups, 5 responded to therapy and 5 did not respond.
2021-11-11 | MSV000088349 | MassIVE
Project description:Neonatal keratinocytes from African American donors of passage 2 or 3 were treated with 20,23(OH)2D3, 1,25(OH)2D3 or 0.1% ethanol (control) for 6 and 24 hours. The cells were harvested separately, RNA isolated and submitted for microarray analysis at the Molecular Resources Center at the UTHSC.
2018-07-19 | GSE117351 | GEO
Project description:Shisha smoking is widely believed to be a hazard-free habit. Studies have reported shisha smoking to be associated with oral lesions as well ascarcinomas of the lung, esophagus, bladder, and pancreas. A better understanding of the underlying mechanism may contribute to the identification of biomarkers for targeted therapy and better prognosis of the disease. In this study, we have established a chronic model of shisha-exposed oral keratinocytes to study the effect of shisha smoking on oral cells. Normal oral keratinocytes (non-transformed and immortalised), OKF/TERT1, were chronically treated with shisha extract for 8 months. In vitro cellular assays as well as total proteomic analysis were performed using the OKF6/TERT1-Parental and shisha-exposed cells (OKF6/TERT1-Shisha) to understand the effect of shisha smoking on cellular transformation. Chronic exposure of OKF6/TERT1 cells with shisha resulted in a significant increase in cellular proliferation and cell invasion compared to the OKF6/TERT1-Parental cells. Quantitative proteomic analysis of OKF6/TERT1-Parental and OKF6/TERT1-Shisha cells resulted in the identification of more than 5,515 proteins. Of these 5,515 proteins, 82, 77, 106, 110 proteins were found to be differentially expressed (1.5-fold) in OKF6/TERT1 cells chronically treated with shisha extract for 2M, 4M, 6M and 8M, respectively when compared with OKF6/TERT1-Parental. Pathway and gene ontology-based analysis revealed dysregulation of interferon pathway, upregulation of proteins involved in cell growth and downregulation of immune processes. This study reveals that chronic treatment of normal oral keratinocytes with shisha leads to cellular transformation. Elucidation of dysregulated proteins in shisha smoke-exposed cells will provide insights into the effect of shisha smoking on oral cells and aid in identification of therapeutic targets.
2019-02-21 | PXD011106 | Pride
Project description:We have performed gene expression microarry analysis to profile molecular alterations in normal human oral keratinocytes that are induced by EtOH and/or nicotine. Our goal is to examine molecular signatures that are dysregulated by EtOH or nicotine and define the effects of co-use of alcohol and nicotine on normal oral epithelial cells and potentially on carcinogenesis. Primary normal human oral keratinocytes were cultured and treated with various dose of EtOH (0, 20 and 50 mM) and cotreated with various dose of nicotine (0, 0.5 and 1uM) for 24 hours. Total RNA was isolated and subjected to gene expression microarray analysis using Affymetrix Human Genome 2.0 plus.
2014-05-14 | E-GEOD-57634 | biostudies-arrayexpress