Transcriptome sequencing in patients with tongue cancer
Ontology highlight
ABSTRACT:
ORGANISM(S): Homo sapiens
PROVIDER: GSE143950 | GEO | 2020/04/22
REPOSITORIES: GEO
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Project description:Analysis of SCC-15 tongue cancer cells overexpressing miR-762. miR-762 is frequently upregulated in primary tongue cancer. Results provide insight into the role of miR-762 in the pathogenesis of tongue cancer. We used micorarrays to detailed the genes regulated by miR-762 in SCC-15 cells.
2018-11-09 | GSE122328 | GEO
Project description:Analysis of SCC-15 tongue cancer cells overexpressing miR-611. miR-611 is frequently upregulated in primary tongue cancer. Results provide insight into the role of miR-611 in the pathogenesis of tongue cancer. We used micorarrays to detailed the genes regulated by miR-611 in SCC-15 cells.
2019-12-01 | GSE129118 | GEO
Project description:Analysis of SCC-9 tongue cancer cells overexpressing miR-585-5p. miR-585-5p is frequently downregulated in primary tongue cancer. Results provide insight into the role of miR-585-5p in the pathogenesis of tongue cancer. We used micorarrays to detailed the genes regulated by miR-585-5p in SCC-9 cells.
2018-05-08 | GSE114093 | GEO
Project description:RNA extracted from 78 FFPE tongue samples, 62 tongue carcinomas and 16 non-malignant controls, were succesfully analysed using the whole genome DASL array to obtain gene expression profiles. Gene expression profiles were used to identify differentially expressed genes with the ultimate goal of finding out their importance for tongue cancer development and maintenance. Sample were formalin fixed paraffin embedded biopsies taken for diagnostic purposes and had been stored between 1 and 13 years. Because of the general poor quality of RNA from archival samples a special focus were put on its effect on the detected expression levels. 28 tumours and 16 controls with a CTdiff< 5 were selected for differential gene expression analysis. Raw data for only these samples were normalized again. Data for these 44 samples can be found here.
2012-05-11 | GSE34106 | GEO
Project description:RNA extracted from 78 FFPE tongue samples, 62 tongue carcinomas and 16 non-malignant controls, were succesfully analysed using the whole genome DASL array to obtain gene expression profiles. Gene expression profiles were used to identify differentially expressed genes with the ultimate goal of finding out their importance for tongue cancer development and maintenance. Sample were formalin fixed paraffin embedded biopsies taken for diagnostic purposes and had been stored between 1 and 13 years. Because of the general poor quality of RNA from archival samples a special focus were put on its effect on the detected expression levels. 28 tumours and 16 controls with a CTdiff< 5 were selected for differential gene expression analysis. Data for only these sample were normalized again and can be found in seperate data file.
2012-05-11 | GSE34105 | GEO
Project description:41% of all oral carcinomas have been found to localize at tongue, where they were characterized as being aggressive and having capacity to locally invade and relapse frequently. Despite considerable enhancements in the cancer diagnosis and treatment techniques, tongue squamous cell carcinoma (TSCC) still remains to be one of the most common and lethal cancer types in the head and neck region. In this study, we aimed to identify a signature of saliva-specific microRNAs (miRNAs) expression in TSCC patients. To explore putative diagnostic biomarkers, we compared the miRNA profiles of saliva samples obtained from 3 TSCC patients and 4 healthy control individual using Agilent miRNA microarray (V19). Three of the differentially expressed miRNAs were selected for further validation with quantitative reverse-transcription PCR (qRT-PCR) using saliva samples of 25 TSCC patients and 25 healthy control individuals. Microarray analysis demonstrated that 428 miRNA probes were deregulated in TSCC patients when compared to control group and qRT-PCR results validated the reduced expression of miR-139-5p in TSCC saliva. Further analysis of post-operative saliva samples of TSCC patients revealed that miR-139-5p level elevated to normal level after surgery, pointing its diagnostic and prognostic power. As a conclusion, we propose saliva as a feasible source in routine patient examination for early diagnosis of TSCC patients, and our results suggest saliva miR-139-5p as a novel potential diagnostic marker.
2016-10-20 | GSE69002 | GEO
Project description:We aimed to understand the molecular basis of muscular development in tongue. We focused on the critical stages of tongue myogenesis, namely, E10.5 (settlement of myogenic progenitors in tongue primordium), E11.5 (initiation of myoblast differentiation with the development of lateral lingual swellings).
2014-03-11 | GSE51364 | GEO
Project description:RNA extracted from 78 FFPE tongue samples, 62 tongue carcinomas and 16 non-malignant controls, were succesfully analysed using the whole genome DASL array to obtain gene expression profiles. Gene expression profiles were used to identify differentially expressed genes with the ultimate goal of finding out their importance for tongue cancer development and maintenance. Sample were formalin fixed paraffin embedded biopsies taken for diagnostic purposes and had been stored between 1 and 13 years. Because of the general poor quality of RNA from archival samples a special focus were put on its effect on the detected expression levels. 28 tumours and 16 controls with a CTdiff< 5 were selected for differential gene expression analysis. Raw data for only these samples were normalized again. Data for these 44 samples can be found here. Total RNA from formalin fixed paraffin embedded sample was extracted using the High Pure RNA Paraffin Kit according to the manufacturer’s protocol. Quality of FFPE sample were evaluated by comparing how well a kousekeeping gene (TUBA6) could be amplified using q-PCR in each FFPE sample compared to two fresh frozen sample (Ctdiff= CTffpe-Ctff). The DASL platform (cDNA-mediated annealing, selection, extension, and ligation assay) was used together with the whole genome arrays to obtain expression data for 20 818 genes.
2012-05-10 | E-GEOD-34106 | biostudies-arrayexpress
Project description:RNA extracted from 78 FFPE tongue samples, 62 tongue carcinomas and 16 non-malignant controls, were succesfully analysed using the whole genome DASL array to obtain gene expression profiles. Gene expression profiles were used to identify differentially expressed genes with the ultimate goal of finding out their importance for tongue cancer development and maintenance. Sample were formalin fixed paraffin embedded biopsies taken for diagnostic purposes and had been stored between 1 and 13 years. Because of the general poor quality of RNA from archival samples a special focus were put on its effect on the detected expression levels. 28 tumours and 16 controls with a CTdiff< 5 were selected for differential gene expression analysis. Data for only these sample were normalized again and can be found in seperate data file. Total RNA from formalin fixed paraffin embedded sample was extracted using the High Pure RNA Paraffin Kit according to the manufacturer’s protocol. Quality of FFPE sample were evaluated by comparing how well a kousekeeping gene (TUBA6) could be amplified using q-PCR in each FFPE sample compared to two fresh frozen sample (Ctdiff= CTffpe-Ctff). The DASL platform (cDNA-mediated annealing, selection, extension, and ligation assay) was used together with the whole genome arrays to obtain expression data for 20 818 genes.
2012-05-10 | E-GEOD-34105 | biostudies-arrayexpress
Project description:We aimed to understand the molecular basis of muscular development in tongue. We focused on the critical stages of tongue myogenesis, namely, E10.5 (settlement of myogenic progenitors in tongue primordium), E11.5 (initiation of myoblast differentiation with the development of lateral lingual swellings). We conducted miRNA microarray analysis of the tongue primordia at E10.5 and E11.5, during which myoblast differentiation was induced as a result of the activation of muscle regulatory gene expression. The medial part of the fused mandibular prominences that corresponds to a tongue primordium were collected from E10.5 and E11.5 mouse embryos. Forty embryos for each time-point were used to obtain a pool of total RNA.
2014-03-11 | E-GEOD-51364 | biostudies-arrayexpress