Spatially Resolved Transcriptomic Signatures of Hippocampal Subregions and Arc-Expressing Ensembles in Active Place Avoidance Memory [RNA-seq]
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 5 conditions, mostly in duplicateGroups 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
- Spatially Resolved Transcriptomic Signatures of Hippocampal Subregions and Arc-Expressing Ensembles in Active Place Avoidance MemorybioRxiv : the preprint server for biology · 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 GSE279272_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 PRJNA1171780 and SRA study SRP537936. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 5 replicated groups read from 16 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.
- GSM8565610 Untrained1, CA1 Untrained1, CA
- GSM8565611 Untrained2, CA1 Untrained2, CA
- GSM8565612 Untrained3, CA1
- GSM8565613 Trained1, CA1 Trained1, CA
- GSM8565614 Trained2, CA1 Trained2, CA
- GSM8565615 Trained3, CA1 Trained3, CA
- GSM8565616 Untrained1, CA3 Untrained1, CA
- GSM8565617 Untrained2, CA3 Untrained2, CA
- GSM8565618 Trained1, CA3 Trained1, CA
- GSM8565619 Trained2, CA3 Trained2, CA
- GSM8565620 Trained3, CA3 Trained3, CA
- GSM8565621 Untrained1, DG
- GSM8565622 Untrained3, DG
- GSM8565623 Trained1, DG
- GSM8565624 Trained2, DG
- GSM8565625 Trained3, DG
- GSE337822 Transcriptomic Signatures Reveal Overlapping Shared and DistinctYet State-Specific Preoptic Neuronal Ensembles Activated by Anesthesia and Sleep 20 samples shares signatures, ensembles
- GSE243650 The reverse transcriptase inhibitor 3TC modulates hippocampal transcriptome signatures of inflammation in tauopathy model mice 12 samples shares hippocampal, signatures
- GSE255212 Transcriptomic Signatures of WNT-Driven Pathways and Granulosa Cell-Oocyte Interaction during Primordial Follicle Activation 762 samples shares signatures
- GSE292261 A dynamic gene regulatory code drives synaptic development of hippocampal granule cells [SS2] 576 samples shares hippocampal
- GSE291420 Deciphering the Transcriptomic Signatures of Aging Across Organs in Mice 270 samples shares signatures
- GSE239946 Signatures of IL1b, IL6 and TNFa in immune cell-types 209 samples shares signatures
- GSE232833 Molecular Cascade Reveals Sequential Milestones Underlying Hippocampal Neural Stem Cell Development into an Adult State 189 samples shares hippocampal
- GSE223323 Enterocyte like differentiation defines metabolic gene signatures of CMS3 colorectal cancers and provides therapeutic vulnerability 148 samples shares signatures
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.