Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from SKBR3 cells

ABSTRACT: Long noncoding RNA plays a significant role in gene regulation. Long noncoding RNA TMS1AS negatively regulates the sense strand gene TMS1 in breast cancer cells SKBR3. TMS1 is invovled in cell growth and apoptosis through regulating its target genes. We used microarrays to detail the global programme of gene expression upon TMS1AS knockdown or TMS1 knockdown and analyzed the specifity of TMS1AS regulating TMS1.

ORGANISM(S): Homo sapiens

PROVIDER: GSE85032 | GEO | 2017/08/01

SECONDARY ACCESSION(S): PRJNA336000

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Expression data from lncRNA AL078604.2 and LINC01269 knockdown in MDA-MB-231, MDA-MB-468 and SKBR3 breast cancer cell lines

Project description:Breast cancer subtype-specific lncRNAs AL078604.2 and LINC01269 were knockdown in breast cancer cell lines LncRNA AL078604.2 was knockdown by an anti-AL076804.2 antisense oligonucleotides (ASOs) in triple-negative breast cancer cell lines MDA-MB-231 and MDA-MB-468 breast cancer cells. LncRNA LINC01269 was knockdown by an anti-LINC01269 ASOs in HER2+ SKBR3 breast cancer cells. To ensure the initial presence of AL078604.2 and LINC01269 in their respective cell lines, qPCR analysis was performed to confirm their expression levels prior to knockdown experiments. The effectiveness of knockdown was confirmed by qPCR analysis, which validated the reduction in AL078604.2 and LNC01269 expression in their corresponding cell lines following ASO treatment.

2023-12-13 | GSE235165 | GEO

expression data from NDRG1 depleted SKBR3 cells

Project description:SKBR3 cells expressing NDRG1 shRNA1 or vector control were harvested by trypsinization and total RNA was extracted. Silencing NDRG1 reduces cell proliferation rates, causing lipid metabolism dysfunction including increased fatty acid incorporation into neutral lipids and lipid droplets. global changes in transcriptome due to NDRG1 silencing were observed

2018-06-21 | GSE112841 | GEO

RNA-seq of intestinal epithelial cells transfected with an siRNA targeting the host long noncoding RNA, NR_033483, or a scrambled siRNA control, with or without Cryptosporidium infection

Project description:Cryptosporidium is a protozoan parasite that infects the gastrointestinal tract of humans and animals. It is an important opportunistic pathogen in children under the age of two and immunocompromised adults. There is currently no fully effective therapy or vaccine. Long noncoding RNAs are RNA transcripts, over 200 nt in length, that are capable of regulating gene expression through both transcriptional and translational methods. Our lab previously identified a panel of host long noncoding RNAs are that upregulated during Cryptosporidium infection, including NR_033483. Further experiments indicated this host long noncoding RNA may be playing a pro-parasitic role during infection. We hypothesized that NR_033483 is regulating the expression of host immune genes to aid the parasite. In this study, we treated intestinal epithelial cells with an siRNA targeting NR_033483 to knockdown its expression, or a scrambled siRNA control, and infected the samples with Cryptosporidium. We sought to determine changes in host gene expression when NR_033483 was knocked down verse control samples.

2023-05-31 | E-MTAB-12972 | biostudies-arrayexpress

RNA-sequencing of SKBR3 cells with and without NTN4 overexpression

Project description:Low NTN4 expression is correlated with breast cancer proliferation and metastasis, while the molecular mechanism of NTN4 has not been fully explored. Here, the breast cancer cells SKBR3 stably expressing dCas9-VP64 and MS-P65-HSG1 were generated by transducing a lentiviral plasmid containing lenti-dCAS-VP64-Blast (Addgene plasmid # 61425) and lenti-EF1a-MS2–p65–HSF1-2A-Hygro-WPRE (Addgene plasmid # 89308), followed by selection and maintained using 10 μg/mL of blasticidin and 200 μg/mL of hygromycin. SKBR3-dCas9-VP64-MPH cells were further transduced with a doxycycline (Dox)-induced expressing sgRNA targeting NTN4 promoter. The successfully transfected cells were selected and maintained with puromycin at a concentration of 0.5 μg/mL for SKBR3-dCas9-VP64-MPH. SKBR3-dCas9-VP64-MPH-AC-sgRNA cells were treated with or without 50 ng/μL Dox (three biological repeats for both groups) to induce NTN4 overexpressing. Total RNA was extracted using TRIzol according to the manufacturer’s instructions. The quality of RNA samples was examined by Agilent BioAnalyser 2100. The samples were subjected to RNA-sequencing analysis on the BGISEQ-500 system by Beijing Genomics Institute (BGI, China). The clean-tag reads were aligned to the reference genome and reference genes using HISAT2 and Bowtie2. The matched reads were calculated and then normalized using RSEM software. Differential gene expression was analyzed using DESeq2 and was carried out further to explore the mechanism of NTN4 in breast cancer.

2022-05-27 | GSE197635 | GEO

TSA induced gene expression variation on breast cancer cell SKBR3

Project description:To explore TSA influence on human breast cancer cells, we attempt to analyze genes differentially expressed between TSA treated and untreated SKBR3 cells, which will hopefully provide clues for TSA target genes.

2017-02-28 | GSE95087 | GEO

Chromatin immunoprecipitation of human SKBR3 cells using anti-p53 antibodies

Project description:ChIP with anti-p53 (DO-1) of human SKBR3 cells

2010-02-18 | E-MEXP-2538 | biostudies-arrayexpress

Proteomic of SKBr3 treated with PFOA or TPP

Project description:Proteomic of SKBr3 cells of Homo sapiens treated by PFOA

2020-05-26 | PXD019397 |

expression data from NDRG1 depleted SKBR3 cells

Project description:expression data from NDRG1 depleted SKBR3 cells

| PRJNA449286 | ENA

Effect of CTTN on SKBR3 breast cancer cells (RNA-seq)

Project description:RNA-sequencing analysis of control and CTTN-overexpressed SKBR3 cell lines. CTTN (also known as EMS1), an actin-binding protein, is highly amplified in several human cancers, including breast carcinomas. Results provide insight into the transcriptional regulation of CTTN in breast cancer.

2023-03-09 | GSE201563 | GEO

Assessment Of Long Noncoding RNA CCAT1 In Colorectal Cancer Patients

Project description:1. Evaluate the diagnostic value of long noncoding RNA (CCAT1) expression by RT-PCR in peripheral blood in colorectal cancer patients versus normal healthy control personal. 2. Evaluate the clinical utility of detecting long noncoding RNA (CCAT1) expression in diagnosis of colorectal cancer patients & its relation to tumor staging. 3. Evaluate the clinical utility of detecting long noncoding RNA (CCAT1) expression in precancerous colorectal diseases. 4. Compare long noncoding RNA (CCAT1) expression with traditional marker; carcinoembryonic antigen (CEA) and Carbohydrate antigen 19-9 (CA19-9) in diagnosis of colorectal cancer.

| 2330122 | ecrin-mdr-crc

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