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Transcriptomic analysis of lncrna NRAD1 knockdown in SUM149 Breast cancer cells

ABSTRACT: SUM149 breast cancer cells were treated with NRAD1 gapmers for 48 hrs and RNA was extracted. RNA was analysed on affymetrix human transcriptome array 2.0

ORGANISM(S): Homo sapiens

PROVIDER: GSE294997 | GEO | 2025/07/22

REPOSITORIES: GEO

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The effect of lncRNA NRAD1 knockdown on mature miRNA levels in MDA-MB-468 and SUM149 cells

Project description:NRAD1 was knocked down using GapmeRs specific to NRAD1. The breast cancer cells used in this study were confirmed to have NRAD1 expression by qPCR and knockdown of NRAD1 was confirmed by qPCR.

2025-07-22 | GSE295075 | GEO

Transcriptomic analysis of lncrna NRAD1 knockdown in SUM149 Breast cancer cells

Project description:Transcriptomic analysis of lncrna NRAD1 knockdown in SUM149 Breast cancer cells

| PRJNA1252687 | ENA

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

Expression Profiles of SUM149 cell treated by ACY1215

Project description:Expression Profiles of SUM149 cell treated by ACY1215 at 0h, 3h, 6h and 12h by Agilent SurePrint G3 Human GE v3 8x60K. Expression Profiles of SUM149 cell treated by ACY1215 at 0h, 3h, 6h and 12h

2016-08-23 | E-GEOD-72344 | biostudies-arrayexpress

Expression Profiles of SUM149 cell treated by ACY1215

Project description:Expression Profiles of SUM149 cell treated by ACY1215 at 0h, 3h, 6h and 12h by Agilent SurePrint G3 Human GE v3 8x60K.

2016-08-23 | GSE72344 | GEO

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

RNA-sequencing of treatment-naive, Lapatinib-resistant, and resistant-reversal SUM149 IBC cells

Project description:In this experiment, SUM149 IBC cells were cultured using baseline medium (N=3), and in baseline medium supplemented with increasing concentration of Lapatinib to induce resistance (N=3; rSUM149). Resistant reversal SUM149 cells (rrSUM149) were then generated by culturing in rSUM149 cells in baseline medium. Gene expression data were generated to identify differentially expressed genes, as well as differentially activated proteins and pathways during Lapatinib resistance and resistance reversal. Gene expression were also integrated with proteome expression data generated under the same conditions.

2024-04-05 | E-MTAB-13929 | biostudies-arrayexpress

TMT analysis of LARP6 knockdown impact on protrusion induced changes in the proteome of MDA-MB231 cells

Project description:To assess if LARP6 is required for upregulation of ribosomal proteins upon protrusion induction, MDA-MB231 breast cancer cells were treated with non-targeting (NT) or LARP6 siRNA for 48 hrs, before being seeded on top of collagen-I coated 3 micron transwell filters (corning). No media was added to the bottom chamber and cells were allowed to adhere to filter overnight. The next day, the media on top of cells was refreshed, and the filters were either left with no media in the bottom chamber (closed pores), or with media also added to the bottom chamber (open pores) in order to allow formation of protrusions. Cells were allowed to form protrusions for 12 hrs before being lysed and analysed by mass spectrometry.

2020-10-20 | PXD021180 | Pride

Baseline Expression of Inflammatory Cytokines and Receptors in the SUM149 Human Breast Cancer Cell Line

Project description:Immortalized human breast cancer cell line, SUM149, was analyzed via RT-qPCR for transcript expression of selected cytokines and cytokine receptors associated with promotion of tumor vasculature and breast cancer metastasis

2016-05-06 | GSE80646 | GEO

Transcriptomic analysis of A3250 inflammatory breast cancer (IBC) cells, SUM149 IBC and MDA-MB-231 non-IBC cells

Project description:Purpose: Transcriptome profiling (RNA-seq) of a novel human Inflammatory Breast Cancer cell line A3250 in comparison to SUM149 and MDA-MB-231 Inflammatory Breast Cancer (IBC) is the most aggressive form of breast cancer with distinct clinical and histopathological features, but understanding of the unique aspects of IBC biology lags far behind that of other breast cancers. We describe a novel triple-negative IBC cell line, A3250, that recapitulates key features of human IBC in a mouse xenograft model.The purpose of this study was to compare differences in gene expression between A3250 IBC, MDA-MB-231 non-IBC and SUM149 IBC that does not present with typical clinical sympotms of IBC in a mouse model, with the goal of identifying unique molecular features for this unique type of breast cancer Results: RNA-Seq analysis identified expression profile characteristic for the novel A3250 IBC cell line, compared to SUM149 IBC and MDA-MB-231 non-IBC.

2021-10-01 | GSE180788 | GEO

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