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Transcription profiling of human lung squamous cell carcinoma tissue and adjacent normal lung tissue on a disease-focused microarray

ABSTRACT: Due to increasing evidence of the complexity of the transcriptome, we have, through a combination of cDNA sequencing, gene expression profiling and public sequence data mining, characterized the transcriptome of Non-Small Cell Lung Carcinoma. We used this information to create a unique disease focused microarray capable of measuring ~60,000 individual transcripts, many of which are undetectable on standard microarrays. Expression profiling demonstrated significant detection of the additional unique/novel transcriptome content. In this technical assessment experiment, one patient sample was profiled. Frozen pairs of lung squamous cell carcinoma and adjacent normal lung tissue originating from a single donor were obtained from Asterand (Detroit, MI). All sample pairs were processed immediately and under identical conditions. For both normal and tumour tissue, 5 technical replicates were profiled.

ORGANISM(S): Homo sapiens

SUBMITTER: Tanney Austin

PROVIDER: S-ECPF-TABM-387 | biostudies-other |

REPOSITORIES: biostudies-other

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Transcription profiling of human lung squamous cell carcinoma tissue and adjacent normal lung tissue on a disease-focused microarray

Project description:Due to increasing evidence of the complexity of the transcriptome, we have, through a combination of cDNA sequencing, gene expression profiling and public sequence data mining, characterized the transcriptome of Non-Small Cell Lung Carcinoma. We used this information to create a unique disease focused microarray capable of measuring ~60,000 individual transcripts, many of which are undetectable on standard microarrays. Expression profiling demonstrated significant detection of the additional unique/novel transcriptome content. In this technical assessment experiment, one patient sample was profiled. Frozen pairs of lung squamous cell carcinoma and adjacent normal lung tissue originating from a single donor were obtained from Asterand (Detroit, MI). All sample pairs were processed immediately and under identical conditions. For both normal and tumour tissue, 5 technical replicates were profiled.

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miRNA expression profiles in head and neck squamous cell carcinoma and adjacent normal tissue.

Project description:BackgroundThe expression of miRNA in head and neck squamous cell carcinomas (HNSCCs) that had been classified as high risk by surgical pathologic features and validated by trial outcome for disease recurrence was determined and compared with matched adjacent normal tissues.MethodsmiRNA and corresponding gene expression were determined using miRNA bioarrays and gene expression arrays.ResultsTwenty miRNAs were determined to be differentially regulated in the HNSCC samples when compared with their normal tissue counterparts. Quantitative reverse transcriptase-polymerase chain reaction confirmed differential regulation of miRNA expression, and gene expression analysis on these same-paired samples confirmed the loss of putative mRNA targets including genes such as adenomatous polyposis coli, programmed cell death protein 4, and TGF beta receptor 3 in the tumor samples.ConclusionsThese data suggest a role for the upregulation of specific miRNAs in high-risk HNSCC. Furthermore, upregulation of these miRNAs may be responsible for the elimination of mRNAs that lead to the growth and progression of HNSCC.

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Squamous cell carcinoma subverts adjacent histologically normal epithelium to promote lateral invasion.

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circRNA microarray profile analysis in esophageal squamous cell carcinoma(ESCC) and adjacent normal tissues

Project description:The circRNA expression profile related to ESCC in high-incidence areas of China was successfully constructed, and differentially expressed circRNAs were screened out and their functions were predicted.The circRNA expression in ESCC tissues was significantly different from that in adjacent normal tissues.GO and Pathway analysis showed that differentially expressed circRNAs were mainly involved in biological functions such as cellular process, metabolic process, biological regulation, binding and catalytic activity, and involved in multiple regulatory pathways including extracellular matrix receptor interaction, adhesion spot, protein digestion and absorption.Then their circRNA-miRNA network was constructed to better understand the related mechanism of circRNAs and provide ideas for exploring the biology functions of circRNAs in ESCC, revealing that the differentially expressed circRNAs were closely related to ESCC.

2023-09-10 | GSE157803 | GEO

microRNA microarray profile analysis in esophageal squamous cell carcinoma(ESCC) and adjacent normal tissues

Project description:The miRNA expression profile related to ESCC in high-incidence areas of China was successfully constructed, and differentially expressed miRNAs were screened out and their functions were predicted.The miRNA expression in ESCC tissues was significantly different from that in adjacent normal tissues.GO and Pathway analysis showed that differentially expressed miRNAs were mainly involved in biological functions such as cellular process, metabolic process, biological regulation, binding and catalytic activity, and involved in multiple regulatory pathways including extracellular matrix receptor interaction, adhesion spot, protein digestion and absorption.Then their circRNA-miRNA network was constructed to better understand the related mechanism of miRNAs and provide ideas for exploring the biology functions of miRNAs in ESCC, revealing that the differentially expressed miRNAs were closely related to ESCC.

2023-09-10 | GSE157805 | GEO

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