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Overexpression of miR-200s in murine ovarian cancer cells (ID8 and 28-2)

GSE250195 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2024/07/03 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 12 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
12 samples: 3 × ID8_control lentivirus and grown as 2D culture vs 3 × ID8_lentivirus containing the miR-200c/141 cluster + lentivirus containing the miR-200b/200a/429 cluster_2D culture vs 3 × 28-2_control lentivirus and grown as 2D culture vs 3 × 28-2_lentivirus containing the miR-200c/141 cluster + lentivirus containing the miR-200b/200a/429 cluster_2D cultureGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Paper
Overexpression of miR-200s inhibits proliferation and invasion while increasing apoptosis in murine ovarian cancer cellsPloS one · 2024
Summary (written by the submitters)
Little is known about the role of miR-200s in the progression of ovarian cancer. In this study we overexpressed the miR-200c/141 cluster, the miR-200b/200a/429 cluster, or both clusters in two different murine ovarian cancer cell lines (ID8 and 28-2). As co-oeverexpression of both clusters provided the best miR-200 overexpression, we evaluated ID8 and 28-2 cells overexpressing both miR-200 clusters (ID8-200f and 28-2-200f) compared to empty vector control cells (ID8EV and 28-2EV).
Read the full summary ↓
ID8-200f and 28-2-200f cells showed increased expression of several mesenchymal genes, decreased proliferation, decreased invasion and increased apoptosis compared to their respective controls. RNA sequencing of ID8EV, ID8-200f, 28-2EV and 28-2-200f cells revealed that overexpression of miR-200s primary regulated genes involved in epithelial mesenchymal transition EMT) and gene implicated in migration. Therefore, our work suggests that miR-200s can inhibit characteristics associated ovarian cancer progression (increased proliferation and invasion and promotion of EMT).
Published in
Overexpression of miR-200s inhibits proliferation and invasion while increasing apoptosis in murine ovarian cancer cells
Carter R, Petrik JJ, Moorehead RA · PloS one 2024 · PMID 39028700 · doi:10.1371/journal.pone.0307178
This dataset
Open GSE250195 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE250195_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1052653 and SRA study SRP478160. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39028700) ↗
Study design
3 × ID8_control lentivirus and grown as 2D culture vs 3 × ID8_lentivirus containing the miR-200c/141 cluster + lentivirus containing the miR-200b/200a/429 cluster_2D culture vs 3 × 28-2_control lentivirus and grown as 2D culture vs 3 × 28-2_lentivirus containing the miR-200c/141 cluster + lentivirus containing the miR-200b/200a/429 cluster_2D culture

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study
Datasets on a similar topic

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