TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activity [01b_bulk_rna_seq_luminal_vs_basal]
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 5 × luminal wild type vs 5 × basal wild typeGroups 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
- TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activityBreast cancer research : BCR · 2024
Read the full summary ↓
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE243505_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1018826 and SRA study SRP461616. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM7789687 luminal wild type rep1 luminal wild type
- GSM7789688 basal wild type rep1 basal wild type
- GSM7789689 luminal wild type rep2 luminal wild type
- GSM7789690 basal wild type rep2 basal wild type
- GSM7789691 luminal wild type rep3 luminal wild type
- GSM7789692 basal wild type rep3 basal wild type
- GSM7789693 luminal wild type rep4 luminal wild type
- GSM7789694 basal wild type rep4 basal wild type
- GSM7789695 luminal wild type rep5 luminal wild type
- GSM7789696 basal wild type rep5 basal wild type
- GSE243504 TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activity [01a_bulk_rna_seq_PCX_Cre_shTRPS1] 18 samples shares trps1, mrtf, srf, progenitors, repressing, maintains, activity, luminal
- GSE243508 TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activity [02_citeseq_shTRPS1_mmg] 12 samples shares trps1, mrtf, srf, progenitors, repressing, maintains, activity, luminal
- GSE243506 TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activity [01c_bulk_rna_seq_K8-CreER_shTRPS1] 11 samples shares trps1, mrtf, srf, progenitors, repressing, maintains, activity, luminal
- GSE243511 TRPS1 maintains luminal progenitors in the mammary gland by repressing SRF/MRTF activity 65 samples shares trps1, mrtf, srf, progenitors, repressing, maintains, activity, luminal
- GSE285078 MRTFA-SRF driven gene expression promotes cellular stiffness by controlling cytoplasmic Ca2+ and K+ levels in cancer cells II 36 samples shares mrtf, srf
- GSE298922 Inactivation of the SRF cofactors Mrtfa and Mrtfb in MEFs results in proliferation defects and reduced expression of cytoskeletal and cell cycle progression genes 24 samples shares mrtf, srf
- GSE273414 MRTFA-SRF driven gene expression promotes cellular stiffness by controlling cytoplasmic Ca2+ and K+ levels in cancer cells 18 samples shares mrtf, srf
- GSE279677 Single cell deletion of the transcription factors Sox9 and Trps1 reveals novel functions in adult cortical astrocytes [RNA-seq] 289 samples shares trps1
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.