Comparing axon regeneration in male and female mice after peripheral nerve injury
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 × Female SNI vs 3 × Female sham vs 3 × Male SNI vs 3 × Male shamGroups 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
- Comparing axon regeneration in male and female mice after peripheral nerve injuryJournal of neuroscience research · 2021
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 GSE172064_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 PRJNA721945 and SRA study SRP314821. Searching any of these in the dataset finder brings you back here.
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.
- GSM5241266 Female SNI_rep1 Female SNI
- GSM5241267 Female SNI_rep2 Female SNI
- GSM5241268 Female SNI_rep3 Female SNI
- GSM5241269 Female sham_rep1 Female sham
- GSM5241270 Female sham_rep2 Female sham
- GSM5241271 Female sham_rep3 Female sham
- GSM5241272 Male SNI_rep1 Male SNI
- GSM5241273 Male SNI_rep2 Male SNI
- GSM5241274 Male SNI_rep3 Male SNI
- GSM5241275 Male sham_rep1 Male sham
- GSM5241276 Male sham_rep2 Male sham
- GSM5241277 Male sham_rep3 Male sham
- GSE240708 Degenerative and regenerative peripheral processes are associated with persistent painful chemotherapy-induced neuropathies in males and females 53 samples shares peripheral, female, male
- GSE267938 Functional optic tract rewiring via subtype- and target-specific axonal regeneration and presynaptic activity enhancement 256 samples shares regeneration, axon
- GSE302808 Depletion of Peripheral Monocytes Alters Long-Term Gene Expression in Microglia in a Murine Model of Traumatic Brain Injury 84 samples shares peripheral, injury
- GSE301052 Evaluation of an Anti-thyroid Mode of Action for Thyroid Follicular Cell Adenomas in Female Mice Exposed to Tertiary Butyl Alcohol 72 samples shares female, male
- GSE329024 Distinct HPO axis responses to chronic unpredictable stress in young versus adult female mice 63 samples shares female, male
- GSE252621 Interactions of Polychlorinated Biphenyls and Their Metabolites with the Brain and Liver Transcriptome of Female Mice 62 samples shares female, male
- GSE282066 Accelerated Midlife Endocrine and Bioenergetic Brain Aging in APOE4 Female Mice 59 samples shares female, male
- GSE276182 NF-κB activation in astrocytes critically affects wound regeneration after traumatic brain injury 51 samples shares regeneration, injury
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.