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Transcriptional analysis of MC38 colorectal tumor cells sorted from mice fed high-fat or control diet

ABSTRACT: Transcriptional analysis of MC38 colorectal tumor cells sorted from mice fed high-fat or control diet

PROVIDER: PRJNA663599 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12644339.fastq.gz	Fastqsanger.gz
	SRR12644340.fastq.gz	Fastqsanger.gz
	SRR12644341.fastq.gz	Fastqsanger.gz
	SRR12644342.fastq.gz	Fastqsanger.gz
	SRR12644343.fastq.gz	Fastqsanger.gz

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TMT-proteomics of sorted MC38+ tumor cells with high-fat diet

Project description:Obesity is a major cancer risk factor, but the underlying molecular mechanisms are not always known. In this study, we look at proteome remodeling in cancer cells with obesity, comparing tumor cells sorted from mice fed high-fat versus control diet. We conducted 10-plex TMT-proteomics on GFP+ MC38 colorectal adenocarcinoma tumor cells, sorted from subcutaneously implanted tumors 12 days after implantation. This study reveals molecular pathways that change in cancer cells with obesity that promote tumor growth.

2020-12-16 | PXD019495 | Pride

Transcriptional analysis of MC38 colorectal tumor cells sorted from mice fed high-fat or control diet

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MC38 tumors from mice fed high-fat or control diet

Project description:MC38 tumors from mice fed high-fat or control diet

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Transcriptional analysis of CD45+ leukocytes isolated from syngeneic MC38 tumors from mice fed high-fat or control diet

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Expression data from murine colorectal tumors of mice fed a normal chow diet and a high fat diet

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Spleen proteomics data from high fat diet fed mice

Project description:The composition of the diet affects many processes in the body, including body weight and endocrine system. We have previously shown that dietary fat also affects the immune system. Mice fed high fat diet rich in polyunsaturated fatty acids survive S. aureus infection to a much greater extent than mice fed high fat diet rich in saturated fatty acids. Here we present data regarding the dietary effects on protein expression in spleen from mice fed three different diets, I) low fat/chow diet (LFD, n=4), II) high fat diet rich in saturated fatty acids (HFD-S, n=4) and III) high fat diet rich in polyunsaturated fatty acids (HFD-P, n=4). We performed mass spectrophotometry based quantitative proteomics analysis of isolated spleen by implementing the isobaric tags for relative and absolute quantification (iTRAQ) approach. Mass spectrometry data were analysed using Proteome Discoverer 2.4 software using the search engine mascot against Mus musculus in SwissProt. 924 proteins are identified in all sets (n=4) for different dietary effects taken for statistical analysis using Qlucore Omics Explorer software. Only 20 proteins were found to be differentially expressed with a cut-off value of false discovery rate < 0.1 (q-value) when comparing HFD-S and HFD-P but no differentially expressed proteins were found when LFD was compared with HFD-P or HFD-S. We identified a subset of proteins that showed an inverse expression pattern between two high fat diets. These differentially expressed proteins were further classified by gene ontology for their role in biological processes and molecular functions.

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RNA sequencing of MC38 tumor cells from control-diet- and high-fat-diet-fed C57BL/6J mice

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Transcriptomic Analysis of High Fat Diet Fed Mouse Brain Cortex

Project description:High fat diet can lead to metabolic diseases such as obesity and diabetes known to be chronic inflammatory diseases with high prevalence worldwide. Recent studies have reported cognitive dysfunction in obese patients is caused by a high fat diet. Accordingly, such dysfunction is called “type 3 diabetes” or “diabetic dementia.” Although dysregulation of protein-coding genes has been extensively studied, profiling of non-coding RNAs including long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) has not been reported yet. Therefore, the objective of this study was to obtain profiles of diverse RNAs and determine their patterns of alteration in high fat fed brain cortex compared to normal brain cortex. To investigate regulatory roles of both coding and non-coding RNAs in high fat diet brain, we performed RNA sequencing of ribosomal RNA-depleted RNAs and identified genome-wide lncRNAs and circRNAs expression and co-expression patterns of mRNAs in high fat diet mouse brain cortex. Our results showed expression levels of mRNAs related to neurogenesis, synapse, and calcium signaling were highly changed in high fat diet fed cortex. In addition, numerous differentially expressed lncRNAs and circRNAs were identified. Our study provides valuable expression profiles and potential function of both coding and non-coding RNAs in high fat diet fed brain cortex.

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