Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression profiling of shCtrl and shGABRD AGS cells from Clariom S array

ABSTRACT: GABRD is identified as a tumor promotor in the development of gastric cancer. Herein, to further explore the downstream regulated genes involved in GABRD mediated tumor progression, an Affymetrix Clariom S human Assay was performed to profile the expression of GABRD regulated genes in AGS cells. Gene expression profiling of shCtrl and shGABRD AGS cells was acquired and analyzed. Differentially expressed genes were identified based on fold change of mean of expression (fold change ≥ 1.5) and FDR (< 0.05) from P value calculated based on linear model of empirical Bayesian distribution. GABRD expression regulated the expression of 2644 genes in AGS cells, of which 1199 were upregulated and 1445 were downregulated upon GABRD silencing.

ORGANISM(S): Homo sapiens

PROVIDER: GSE248437 | GEO | 2023/12/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Gene expression profiling of shCtrl and shCNN2 RKO cells from Clariom S array.

Project description:CNN2 is identified as a tumor promotor in the development of colorectal cancer. Herein, gene expression in RKO cells infected with shCtrl and shCNN2 (for CNN2 knockdown) was detected with a Clariom S array. Gene expression profiling of shCtrl and shCNN2 RKO cells was acquired and analyzed. Differentially expressed genes were identified based on fold change of mean of expression (fold change ≥ 1.3) and FDR (< 0.05) from P value calculated based on linear model of empirical Bayesian distribution. In total, 523 upregulated genes and 648 downregulated genes were characterized.

2023-05-04 | GSE229716 | GEO

Gene expression in NCI-H1299 cells infected with shCtrl and shRPL35A

Project description:Gene expression in NCI-H1299 cells infected with shCtrl and shRPL35A was detected with a PrimeView human gene expression array. Gene expression profiling of shCtrl and shRPL35A NCI-H1299 cells was acquired and analyzed. Differentially expressed genes were identified based on fold change of mean of expression (fold change ≥ 1.3) and FDR (< 0.05) from P value calculated based on linear model of empirical Bayesian distribution. Finally, 2055 upregulated genes and 1559 downregulated genes were characterized.

2024-04-24 | GSE264428 | GEO

siRNA knockdown of C1GALT1 in AGS cells

Project description:To determine the C1GALT1 regulated gene expression profile in AGS cells.

2017-12-04 | GSE90672 | GEO

AGS reactor

Project description:AGS reactor Metagenome

| PRJNA645158 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of MYCWT+shCtrl, MYCWT+shTRIB3, MYCT58A+shCtrl and MYCT58A+shTRIB3 cells' Transcriptomes in B cells 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 MYCWT+shCtrl, MYCWT+shTRIB3, MYCT58A+shCtrl and MYCT58A+shTRIB3 lymphoma cells by using NGS-derived lymphoma transcriptome profiling (RNA-seq). Methods: MYCWT+shCtrl, MYCWT+shTRIB3, MYCT58A+shCtrl and MYCT58A+shTRIB3 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 MYCWT+shCtrl, MYCWT+shTRIB3, MYCT58A+shCtrl and MYCT58A+shTRIB3 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.

2020-10-10 | GSE143862 | GEO

Transcriptomes of AGS cells with and without FTO depletion

Project description:RNA sequencing of AGS cells with and without FTO depletion to identify FTO-regulated genes

2021-06-23 | GSE178697 | GEO

Expression data from shROR HT29 and AGS cell

2015-06-05 | GSE67416 | GEO

Expression data from shROR HT29 and AGS cell

Project description:Genome-wide cDNA array from HT29,HT29-shROR,HT29-Mock, AGS, AGS-shROR, AGS-Mock cells We used microarrays to detail the global programme of gene expression and identified significantly changed genes after ROR depletion. HT29,HT29-shROR, HT29-Mock, AGS, AGS-shROR, AGS-Mock cells were selected for RNA extraction and hybridization on Affymetrix microarrays.

2015-06-05 | E-GEOD-67416 | biostudies-arrayexpress

Transcriptomic analysis of SiHa cells stably expressing shCtrl or shSYT7

Project description:GeneChip PrimeView Human PathArrayTM was performed using the SiHa cells-stably expressing shCtrl or shSYT7. To investigate the underlying mechanism of tumor-suppressive phenotypes of CESC with SYT7 knockdown, we used GeneChip PrimeView Gene Expression Array that could detect expression profiling of over 36,000 transcripts and variants using the SiHa-shCtrl and shSYT7-cDNAs

2022-04-11 | GSE200526 | GEO

Homo sapiens strain:AGS and AGS-EBV cell line

Project description:AGS cell line and AGS-EBV cell line Transcriptome or Gene expression

| PRJNA192444 | ENA