RNA-Seq analysis of p27+/+ and p27-/- mouse embryonic fibroblasts grown in full medium for 24 h
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: 4 × p27 WT clone1-exp vs 4 × p27 WT clone2-exp vs 4 × p27 KO-expGroups 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.
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 GSE319079_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 PRJNA1422055 and SRA study SRP676159. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 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.
- GSM9510073 p27 WT clone1-exp1 p27 WT clone1-exp
- GSM9510074 p27 WT clone1-exp2 p27 WT clone1-exp
- GSM9510075 p27 WT clone1-exp3 p27 WT clone1-exp
- GSM9510076 p27 WT clone1-exp4 p27 WT clone1-exp
- GSM9510077 p27 WT clone2-exp1 p27 WT clone2-exp
- GSM9510078 p27 WT clone2-exp2 p27 WT clone2-exp
- GSM9510079 p27 WT clone2-exp3 p27 WT clone2-exp
- GSM9510080 p27 WT clone2-exp4 p27 WT clone2-exp
- GSM9510081 p27 KO-exp1 p27 KO-exp
- GSM9510082 p27 KO-exp2 p27 KO-exp
- GSM9510083 p27 KO-exp3 p27 KO-exp
- GSM9510084 p27 KO-exp4 p27 KO-exp
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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.