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Next Generation Sequencing Facilitates Quantitative Analysis of Cystine-regulated Transcriptomes

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of Cystine-regulated Transcriptomes

PROVIDER: PRJNA663304 | ENA |

REPOSITORIES: ENA

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Next Generation Sequencing Facilitates Quantitative Analysis of Cystine-regulated Transcriptomes

Project description:Purpose: To identify differentially expressed genes regulated by cystine. Methods: HCT116 or RKO cells were cultured for 48 hours in cystine-free or 25μM cystine-containing conditional media, and three independent samples were collected by Trizol reagent and subjected to mRNA-sequencing by the LC Bio (Zhejiang, China) and data analysis Results: we identified cystine upregulated 145 genes and downregulated 169 genes in both HCT116 and RKO cells. GO enrichment analysis revealed that cystine regulated biological functions of G1/S transition of mitotic cell cycle and regulation of DNA replication biosynthetic process.In addition, KEGG enrichment analysis showed that mammalian target of rapamycin (mTOR) signaling pathway, a well-known nutrient sensor, was regulated by cystine. Furthermore,we noticed that SESN2 was one of the most significantly downregulated genes by cystine in both cell lines, and confirmed that cystine activates mTORC1 via the GCN2-ATF4-SESN2 axis in colon cancer cells. Conclusions: Our study established that cystine activates mTORC1 through GCN2-ATF4-SESN2 axis.

2021-04-16 | GSE157894 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of ISL1 Regulated Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of ISL1 Regulated Transcriptomes

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Next Generation Sequencing Facilitates Quantitative Analysis of Solanum lycopersicum bud and flower Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Solanum lycopersicum bud and flower Transcriptomes

2021-02-27 | GSE164382 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Retinoblastoma Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Retinoblastoma Transcriptomes

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Next Generation Sequencing Facilitates Quantitative Analysis of CHAA Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of CHAA Transcriptomes

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Next Generation Sequencing Facilitates Quantitative Analysis of IBP Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of IBP Transcriptomes

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Next Generation Sequencing Facilitates Quantitative Analysis of ZEB1-Regulated Transcriptomes

Project description:The goal of this study is to analyze the transcripts regulated by ZEB1.

2017-08-10 | GSE102337 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Normal Human Kidney Transcriptomes

Project description:Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived normal human kidney transcriptome profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis The kidney tissue was immediately placed and stored in RNAlater® (Ambion), according to the manufacturer’s instruction. The tissue was manually microdissected under microscope in RNAlater® pool for glomerular and tubular compartment. Dissected tissue was homogenized and RNA was prepared using RNAeasy mini columns (Qiagen, Valencia, CA, US), according to the manufacturer’s instructions. RNA quality and quantity were determined using the Laboratory-on-Chip Total RNA PicoKit Agilent BioAnalyzer. Only samples without evidence of degradation were further used (RNA Integrity Number >6).

2014-08-06 | E-GEOD-60119 | biostudies-arrayexpress

Next-Generation Sequencing Facilitates Quantitative Analysis of Transcriptomes in PB- and PB-TERRA-transfected 46C Mouse Embryonic Stem Cells

Project description:Next-generation sequencing facilitates quantitative analysis of transcriptomes in 46C mouse embryonic stem cells overexpressing PB-TERRA or PB empty vector at gene expression level. Results provide important information of the response of up-regulating TERRA, such as specific mechano-responsive genes, up- or down-regulated genes that were mainly enriched in signaling pathways regulating pluripotency of stem cells.

2017-09-18 | GSE103933 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Transcriptomes in PB- and PB-ID2-transfected 46C mouse embryonic stem cells

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Transcriptomes in 46C mouse embryonic stem cells overexpressing PB-ID2 or PB empty vector at gene expression level. Results provide important information of the response of up-regulating ID2, such as specific mechano-responsive genes, up- or down-regulated genes that were mainly enriched in signaling pathways regulating pluripotency of stem cells

2017-05-11 | GSE98759 | GEO

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