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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Systematic Comparison of Mouse and Human Oral Squamous Cell Carcinoma by Using Functional Transcriptomic Analysis

ABSTRACT: This study aims to compare the global expression signature of protein coding genes between oral cancers from carcinogen-induced mice and human patients. Combinatorial treatment of 4NQO and arecoline for 8 weeks consistently induced the formation of mouse oral cancer with morphology and pathology resembling human oral squamous cell carcinoma. In this dataset, 5 mouse normal tongue and 7 tumor samples were used and Illumina Mouse Ref-8 cDNA microarray was conducted. To identify protein coding genes differentially expressed in mice oral cancers, 7 tumor tissues from carcinogen-treated mice and 5 normal tongue tissues from control mice were used in a microarray-based analysis for protein-coding gene expression patterns.

ORGANISM(S): Mus musculus

SUBMITTER: An Hsu

PROVIDER: E-GEOD-64271 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Systematic Comparison of Mouse and Human Oral Squamous Cell Carcinoma by Using Functional Transcriptomic Analysis

Project description:This study aims to compare the global expression signature of protein coding genes between oral cancers from carcinogen-induced mice and human patients. Combinatorial treatment of 4NQO and arecoline for 8 weeks consistently induced the formation of mouse oral cancer with morphology and pathology resembling human oral squamous cell carcinoma. In this dataset, 5 mouse normal tongue and 7 tumor samples were used and Illumina Mouse Ref-8 cDNA microarray was conducted.

2015-12-17 | GSE64271 | GEO

RNA-Seq of Saccharomyces cerevisiae cells carrying different YRR1 alleles in response to 4-nitroquinoline-N-oxide (4NQO) and to glycerol as the sole carbon source

Project description:In this study, we constructed three isogenic strains of S96 yrr1Î? background (its native YRR1 gene was knocked out) carrying three different YRR1 alleles, YRR1_S96, YRR1_YJM789 and YRR1_S96-I775E, respectively. We then conducted RNA deep sequencing (RNA-Seq) on the three strains grown in Yeast Peptone Dextrose medium (YPD), YPD + 4NQO and Yeast Peptone glycerol medium (YPglycerol). RNA-Seq was performed in biological duplicates on S96 cells carrying three different YRR1 alleles grown in YPD, YPD + 4NQO, YPglycerol

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ChIP-Seq for Yrr1 protein on Saccharomyces cerevisiae cells carrying different YRR1 alleles in response to 4-nitroquinoline-N-oxide (4NQO)

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2015-12-04 | E-GEOD-74700 | biostudies-arrayexpress

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Project description:Head and neck squamous cell carcinoma (HNSCC) constitutes 90% of head and neck cancers. HNSCC development is linked to chronic inflammation through mechanisms that are not fully understood. The cytosolic double-stranded DNA sensor Absent in Melanoma 2 (AIM2) is an inflammasome-forming protein that also has inflammasome-distinct roles in restricting tumorigenesis. We performed bulk RNA sequencing on tongue tissue from wild type (WT) and Aim2-/- mice treated with the carcinogen 4NQO in drinking water as a model of experimental HNSCC to uncover gene signatures regulated by AIM2 during HNSCC development.

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4NQO treatment may modulate gene expression in mouse tongue

Project description:Determine whether 4NQO treatment may modulate gene expression in mouse tongue. C57BL/6J mice were given 4NQO (100ug/ml in drink) for 8 weeks; Non-treated control samples were used for comparison.

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Expression data of tongue mucosa from normal mice and mice treated by the 4-NQO

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Genome-wide maps of methylations in experimental lingual carcinogenesis

Project description:To identification of genome wide DNA methylation profiling during lingual tumorigenesis, tongue cancer was induced by oral delivery of 4-nitroquinoline-1-oxide (4NQO) at a dose of 50mg/L for 16weeks in C57BL/6J female mice. Nine samples of lingual mucosa from 0 (encoded as C in experiment), 12 (encoded as M in experiment) and 28 (encoded as E in experiment) week, which were supposed as normality, early and advanced stage during lingual tumorigenesis, were harvested for methylated DNA Immunoprecipitation sequencing. Illumina HiSeq 2000 was used to obtain DNA methylation profiles across 16023 CpG Islands including 26600 promoters and 21625 genebodies in murine tongue samples. Samples included 3 normal lingual mucosa,3 lingual mucosa with hyperplasia, mild and moderate dysplasia, 3 lingual mucosa with carcinoma in situ and invasive cancer.

2017-11-02 | GSE102488 | GEO

Development of gene expression signatures for experimental lingual carcinogenesis

Project description:To identification of gene expression profiling during lingual tumorigenesis, tongue cancer was induced by oral delivery of 4-nitroquinoline-1-oxide (4NQO) at a dose of 50mg/L for 16weeks in C57BL/6J female mice. Nine samples of lingual mucosa from 0th (encoded as C in experiment), 12th ((encoded as M in experiment) and 28th ((encoded as E in experiment) week which were supposed as normality, early stage and cancer during lingual tumorigenesis were harvested for microarray. 2339, 2539 and 2482 genes were significantly varied between M vs. C, E vs. M and E vs. C respectively.

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