Influence of low-input RNA from FF and FFPE samples on gene expression quantification by NanoString, microarray and RNA-seq: a comparative study [RNA-seq]
RNA-seq (gene expression) · mouse · 66 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
- 66 samples
- 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.
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 GSE117677_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 PRJNA482872 and SRA study SRP155276. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 66 more — browse all 66 samples with per-sample file links →
- GSE117678 Influence of low-input RNA from FF and FFPE samples on gene expression quantification by NanoString, microarray and RNA-seq: a comparative study 206 samples shares ffpe, quantification, comparative, nanostring, microarray, influence, low-input, rna-seq
- GSE272152 Optimizing murine sample sizes for RNA-seq studies revealed from large-scale comparative analysis 479 samples shares comparative, rna-seq
- GSE205592 Obesity-instructed TREM2-high macrophages identified by comparative analysis of diabetic mouse and human kidney at single-cell resolution [scRNA-seq: DKD_mouse] 41 samples shares comparative, rna-seq
- GSE283201 Comparative gene expression profiling analysis of hippocampus and liver RNA-seq data for young (3-month-old) and aged (22-month-old) WT mice in both control and ethanol feeding conditions. 32 samples shares comparative, rna-seq
- GSE205593 Obesity-instructed TREM2-high macrophages identified by comparative analysis of diabetic mouse and human kidney at single-cell resolution [scRNA-seq: Baseline_mouse] 24 samples shares comparative, rna-seq
- GSE232481 Comparative single-cell analyses identify shared and divergent features of human and mouse kidney development [mouse scRNA-seq] 13 samples shares comparative, rna-seq
- GSE288210 Comparative gene expression profiling of RNA-seq data from islets of β-cell-specific ZZEF1 knockout mice (βZKO-Mip) and their littermate controls, treated with either azoramide or DMSO. 11 samples shares comparative, rna-seq
- GSE232197 Comparative gene expression profiling analysis of RNA-seq data for mCherryHigh and DTC populations compared to mCherryLow metastatic populations [mCherry Pops and DTCs] 9 samples shares comparative, rna-seq
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.