Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Homo sapiens

ABSTRACT: Selective expression of long non-coding RNAs in a breast cancer cell progression model

PROVIDER: PRJNA384982 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR5488900.fastq.gz	Fastqsanger.gz
	SRR5488910.fastq.gz	Fastqsanger.gz
	SRR5488901.fastq.gz	Fastqsanger.gz
	SRR5488911.fastq.gz	Fastqsanger.gz
	SRR5488902.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 15

Similar Datasets

Homo sapiens

Project description:Novel long non-coding RNAs in breast cancer

| PRJNA318451 | ENA

Homo sapiens

Project description:Identifying long non-coding RNAs in triple-negative breast cancer

| PRJNA271881 | ENA

Detection of APOBEC3B's RNA binding sites in T-47D cells using eCLIP-seq

Project description:RNA editing is a crucial post-transcriptional process that diversifies proteomic outcomes and influences gene expression. Particularly, the APOBEC3 family has emerged as a significant player in this mechanism, with APOBEC3A (A3A) showing notable roles in immune response and stress conditions. APOBEC3B (A3B), another family member, has garnered attention for its potential role in breast cancer genomic mutations. In this study, we employ an inducible expression cell model and eCLIP-seq to detect the RNA binding sites for A3B a breast cancer cell model. Our findings indicate that A3B engages in selective RNA editing and targets NEAT1 and MALAT1 long non-coding RNAs. Notably, the binding of these RNAs sequesters A3B’s catalytic activity, and thereby affects A3A’s activity through a feedback loop.

2024-08-14 | GSE245701 | GEO

Detection of APOBEC3B-mediated RNA editing sites in T-47D cells [RNA-seq]

Project description:RNA editing is a crucial post-transcriptional process that diversifies proteomic outcomes and influences gene expression. Particularly, the APOBEC3 family has emerged as a significant player in this mechanism, with APOBEC3A (A3A) showing notable roles in immune response and stress conditions. APOBEC3B (A3B), another family member, has garnered attention for its potential role in breast cancer genomic mutations. In this study, we employ an inducible expression cell model and a novel methodology for identifying differential variants in RNA (DVRs) to map A3B-mediated RNA editing sites in a breast cancer cell model. Our findings indicate that A3B engages in selective RNA editing and targets NEAT1 and MALAT1 long non-coding RNAs. Notably, the binding of these RNAs sequesters A3B’s catalytic activity, and thereby affects A3A’s activity through a feedback loop.

2024-08-14 | GSE245700 | GEO

Long non-coding RNAs induced by TGF-beta in three breast (cancer) cell lines

Project description:Long non-coding RNAs induced by TGF-beta in three breast (cancer) cell lines

| PRJNA838610 | ENA

Human transcriptome expression analysis of cervical cancer

Project description:Although many protein-coding genes have been identified to be aberrantly expressed in cervical cancer, the mechanisms of development and progression of cervical cancer remain unclear. In recent years, non-coding RNAs, especially including microRNAs and long non-coding RNAs, have been shown to play important regulatory roles in mammalian cell biology. In our study, we investigated the whole genome gene expression level changes by human transcriptome array in tumor tissues and paired adjacent non-tumor tissue of patients with cervical cancer. The functions of different expression microRNAs, long non-coding RNAs and mRNAs were further analyzed in vitro and in vivo using loss-of-function and gain-of-function approaches. A ten chip study using total RNA recovered from five separate cervical cancer tissues and five paired adjacent non-tumor samples.

2014-10-27 | E-GEOD-55940 | biostudies-arrayexpress

MSC-induced lncRNA expression changes in breast cancer cells

Project description:The development of triple-negative breast cancers (TNBCs) – a subset of tumors with particularly aggressive pathogenesis – is critically regulated by certain tumor-microenvironment-associated cells called mesenchymal stem/stromal cells (MSCs), which we and others have shown promote TNBC progression by activating a multitude of signaling nodes that propagate malignant traits in neighboring cancer cells. Characterization of these signaling cascades will better our understanding of TNBC biology, and stands to bring about novel therapeutics that can eliminate the morbidity and mortality associated with advanced disease. Here, we particularly focused on an emerging family of non-coding RNAs – called long non-coding RNAs or lncRNAs – and utilized a MSC-supported TNBC progression model to identify specific lncRNAs of functional relevance to TNBC pathogenesis. We used Affymetrix arrays to identify the gene expression changes that breast cancer cells (in this case, MDA-MB-231 cells) exhibit as they interact with admixed human MSCs

2021-06-09 | GSE171121 | GEO

RNA-sequencing of human breast cancer cell lines treated and untreated with progesterone

Project description:To investigate the progesterone responsive long non-coding RNAs in human breast cancer cells. Cells were treated with 10nM of progesterone for 6 hours and cells were collected in Trizol for total RNA extraction. Total RNA sequencing was performed. Differential expression analysis was performed to identify differential expression of long non-coding RNAs.

2024-07-08 | E-MTAB-11925 | biostudies-arrayexpress

Whole-transcriptome analysis in breast cancer with or without lymph node metastasis

Project description:To identify the mRNAs, long non-coding RNAs (lncRNAs), and circular RNAs (circRNAs) involved in the pathogenesis of breast cancer, we performed the whole transcriptome sequencing. The whole transcriptome sequencing was performed with three breast cancer tissues with or without lymph node metastasis in each group, respectively. The results showed that 728 mRNAs, 131 lncRNAs, and 144 circRNAs were differentially expressed in lymph node metastasis group and no lymph node metastasis group (fold change≥2, p<0.05). These data indicate that dysregulation of mRNAs, lncRNAs, and circRNAs may contribute to breast cancer progression.

2021-12-31 | GSE163346 | GEO

Human transcriptome expression analysis of cervical cancer

2014-10-27 | GSE55940 | GEO