Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Homo sapiens

ABSTRACT: Differential gene expression profiles between SUM149 cells transfected with control siRNA and SUM149 cells transfected with siRNA targeting tarzarotene-induced gene 1 (TIG1)

OTHER RELATED OMICS DATASETS IN: E-GEOD-30543

PROVIDER: PRJNA144493 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Differential gene expression profiles between SUM149 cells transfected with control siRNA and SUM149 cells transfected with siRNA targeting tarzarotene-induced gene 1 (TIG1)

2013-12-03 | GSE30543 | GEO

E-GEOD-30543

Project description:Differential gene expression profiles between SUM149 cells transfected with control siRNA and SUM149 cells transfected with siRNA targeting tarzarotene-induced gene 1 (TIG1)

2025-01-24 | E-GEOD-30543 | ExpressionAtlas

Differential gene expression profiles between SUM149 cells transfected with control siRNA and SUM149 cells transfected with siRNA targeting tarzarotene-induced gene 1 (TIG1)

Project description:We identified tazarotene-induced gene 1 (TIG1) as a potential tumorigenic gene in IBC. To investigate the underlying mechanism by which TIG1 promotes tumor growth and invasiveness of IBC cells, we first sought to identify TIG1 functional partners by using DNA microarray analysis to compare gene expression profiles between SUM149 cells transfected with control siRNA and SUM149 cells transfected with siRNA targeting TIG1. We identified receptor tyrosine kinase Axl as a functional partner of TIG1. SUM149 cells transiently transfected with control siRNA or siRNA targeting TIG1 were used. Total RNA was extracted and purified using RNeasy mini kit (Qiagen, Inc.) according to the manufacturer’s instructions. The integrity of the obtained RNA was assessed using an Agilent 2100 BioAnalyzer (Agilent Technologies). The Affymetrix HGU133 plus platform was used for hybridization, staining, and imaging of the arrays by following the manufacturer’s instructions. Gene expression analysis was performed in triplicate.

2013-12-03 | E-GEOD-30543 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Quantitative Analysis of RBM22-silencing and Control Primary Neonatal Mouse Cardiomyocytes Transcriptomes

Project description:Purpose:The purpose of this study is to identify genes that are either activated or silenced in cardiomyocytes treated with siRNA targeting RBM22 (si-Rbm22) compared to control siRNA (si-Control). Gene expression differences between the two samples were identified using transcriptome profiling (RNA-seq) analysis. Methods: Primary neonatal mouse cardiomyocytes were isolated from neonatal C57BL/6J mice at postnatal day 1.Cardiomyocytes were stained to confirm the expression of cTnT. Cells with purity >97.5% were used for subsequent experiments. Neonatal cardiomyocytes in primary culture were transfected with either siRNA targeting Rbm22 (si-Rbm22) or a non-targeting control siRNA (si-Control) for 48 h, of which RNA profiles were generated by deep sequencing using Illumina. Results: We mapped about 10 million sequence reads per sample to the mouse genome and identified numerous genes with significant mRNA variation between cardiomyocytes transfected with the indicated siRNAs.

2026-02-12 | GSE295695 | GEO

RNA-Seq of HCAEC treated with siRNA against scrambled or VKORC1 or VKORC1L1

Project description:This study investigates transcriptomic changes in human coronary artery endothelial cells (HCAEC) following siRNA-mediated gene silencing. Cells were transfected with either scrambled control siRNA or siRNA targeting VKORC1 or VKORC1L1. Total RNA was extracted and subjected to bulk RNA sequencing to assess differential gene expression profiles associated with loss of VKORC1 or VKORC1L1 function. The dataset enables analysis of gene expression changes related to vitamin K metabolism and downstream signaling pathways in endothelial cells.

2026-02-17 | E-MTAB-16661 | biostudies-arrayexpress

RNA-seq profiling of FBXO8 knockdown in HONE-1 nasopharyngeal carcinoma cells

Project description:This dataset contains bulk RNA-seq profiles of HONE-1 nasopharyngeal carcinoma cells transfected with negative control siRNA or siRNA targeting FBXO8. Three biological replicates were included in each group. Total RNA was extracted for paired-end RNA sequencing to investigate transcriptional changes associated with FBXO8 knockdown in nasopharyngeal carcinoma cells.

2026-08-01 | GSE334187 | GEO

Transcriptome profiling of ARHGAP29-depleted human embryonic palatal mesenchymal cells

Project description:ARHGAP29 is implicated in nonsyndromic cleft lip with or without cleft palate, but its role in human palatal mesenchymal cells remains incompletely understood. Human embryonic palatal mesenchymal (HEPM) cells were transfected with ARHGAP29-targeting siRNA or a non-targeting negative-control siRNA. Total RNA sequencing was performed for three independent biological replicates per group. The study was designed to identify transcriptional changes associated with ARHGAP29 depletion. Differential expression and functional enrichment analyses indicated changes in developmental and stress-responsive gene programs, including p53- and Notch-related pathways.

2026-07-03 | GSE337334 | GEO

Homo sapiens

Project description:Transcriptional profiling comparing MiaPaCa2 pancreatic cancer cells transfected with S100PBP siRNA to MiaPaCa2 cells transfected with non-targeting control siRNA

| PRJNA155967 | ENA

High-throughput RNA sequencing analysis of human nasopharyngeal carcinoma cell line HK1 transfected with E2F1 siRNA or E2F3 siRNA

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are using RNA sequencing analysis to evaluate the effects of si-E2F1 (or E2F3) on the mRNA of human nasopharyngeal carcinoma cell line HK1. Methods: Human nasopharyngeal carcinoma cell line HK1 was transfected with a control non-targeting siRNA to cells or transfected with siRNA targeting E2F1 (or E2F3) for 48 hours in DMEM medium (with 10% serum). Total RNA were extracted and detected by Illumina high-throughput RNA sequencing data analysis. 3 independent biological replicates were plated, transfected in parallel for each control and siRNA. Results: Log-fold changes of up- or down-regulated mRNAs between the control and experiment group were selected with a significance threshold of p<0.05. Conclusions: Our study describes the mRNA changes of human nasopharyngeal carcinoma cell line HK1 transfected with E2F1 (or E2F3) siRNA.

2020-10-11 | GSE138752 | GEO

High-throughput RNA sequencing analysis of human colon cancer cell line HCT116 transfected with LINC00152 siRNA.

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are using RNA sequencing analysis to evaluate the effects of si-LINC00152 on the mRNA of human colon cancer cell line HCT116. Methods: Human colon cancer cell line HCT116 was transfected with a control non-targeting siRNA to cells or transfected with siRNA targeting LINC00152 for 36 hours in DMEM medium (with 10% serum). Total RNA were extracted and detected by Illumina high-throughput RNA sequencing data analysis. 2 independent biological replicates were plated, transfected in parallel for each control and siRNA. Results: Log-fold changes of up- or down-regulated mRNAs between the control and experiment group were selected with a significance threshold of p<0.05. There are 90 mRNAs were up-regulated and 159 were down-regulated in “si-LINC00152” group comparing to “control” group. Conclusions: Our study describes the mRNA changes of human colon cancer cell line HCT116 transfected with LINC00152 siRNA.

2020-02-18 | GSE132519 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data