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Next Generation Sequencing Facilitates Quantitative Analysis of control and Pep2-CM4-treated cells' Transcriptomes in lymphoma

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of control and Pep2-CM4-treated cells' Transcriptomes in lymphoma

PROVIDER: PRJNA523179 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8591260_1.fastq.gz	Fastqsanger.gz
	SRR8591260_2.fastq.gz	Fastqsanger.gz
	SRR8591255_1.fastq.gz	Fastqsanger.gz
	SRR8591255_2.fastq.gz	Fastqsanger.gz
	SRR8591256_1.fastq.gz	Fastqsanger.gz

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Next Generation Sequencing Facilitates Quantitative Analysis of control and Pep2-CM4-treated cells' Transcriptomes in lymphoma

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to analysis the differiational genes and pathways in control and Pep2-CM4-treated lymphoma cells by using NGS-derived lymphoma transcriptome profiling (RNA-seq). Methods: Control and Pep2-CM4-treated cells' mRNA profiles were generated by deep sequencing, in triplicate, using Illumina HiSeq 4000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with following methods: Alignment by using HISAT2 v2.1, IGV was used to to view the mapping result by the Heatmap, histogram, scatter plot or other stytle, FPKM was then calculated to estimate the expression level of genes in each sample, DEGseq v1.18.0 was used for differential gene expression analysis between two samples with non biological replicates and Function Enrichment Analysis including GO enrichment analysis and KEGG . Conclusions: Our study represents the first detailed analysis of Control and Pep2-CM4-treated cells' transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that NGS offers a comprehensive and more accurate quantitative and qualitative evaluation of mRNA content within a cell or tissue. We conclude that RNA-seq based transcriptome characterization would expedite genetic network analyses and permit the dissection of complex biologic functions.

2020-10-02 | GSE126741 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Ocular Adnexal B-cell Lymphoma Transcriptomes

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Next Generation Sequencing Facilitates Quantitative Analysis of Ocular Adnexal Lymphoma and inflammation Transcriptomes

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Next Generation Sequencing Facilitates Quantitative Analysis of Ocular Adnexal B-cell Lymphoma Transcriptomes (Control Group)

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Next Generation Sequencing Facilitates Quantitative Analysis of Ctrl-Cas9 and TRIB3-Cas9 cells' Transcriptomes in lymphoma

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Next Generation Sequencing Facilitates Quantitative Analysis of ad-control and ad-ube3b cells' Transcriptomes in lymphoma

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