Effect of TSPO deletion within mouse hippocampus under neuroinflammation
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: 16 samples, each with a distinct title — no replicated groupsGroups 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 GSE226120_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 PRJNA930582 and SRA study SRP424577. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 distinct titles with little repetition. 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.
- GSM7065113 WT PBS1_A10_1
- GSM7065114 WT PBS2_A10_2
- GSM7065115 WT PBS3_A10_5
- GSM7065116 WT PBS4_A9_1
- GSM7065117 WT LPS1_A9_LPS_1
- GSM7065118 WT LPS2_B9_1
- GSM7065119 WT LPS3_B9_2
- GSM7065120 WT LPS4_B9_3
- GSM7065121 KO PBS1_E8_2PBSY
- GSM7065122 KO PBS2_F3 28_8
- GSM7065123 KO PBS3_F9_PBSKO
- GSM7065124 KO PBS4_B9_4_9
- GSM7065125 KO LPS1_B1_1
- GSM7065126 KO LPS2_B1_2_0
- GSM7065127 KO LPS3_C6_246
- GSM7065128 KO LPS4_H3_121
- GSE226475 Multi-omics analysis reveals single-cell meiotic hotspot dynamics and epigenomic regulations in female mammals 280 samples shares tspo
- GSE327494 Localized PD-1 CAR T therapy reprograms neuroinflammation - mouse CAR T data. 302 samples shares neuroinflammation
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares hippocampus
- GSE335309 Effect of keratinocyte-intrinsic VISTA deletion on UV-induced type I interferon and inflammatory gene expression in mouse epidermis 29 samples shares deletion
- GSE335221 Effect of keratinocyte-intrinsic VISTA deletion on UV-induced type I interferon and inflammatory gene expression in mouse epidermis [bulk RNA-seq] 28 samples shares deletion
- GSE284500 Transcriptional profiling of hippocampus from a zQ175 KI mouse model of Huntington's disease treated with either HTT-10150 siRNA targeting full-length HTT or combination of HTT-634 and HTT-486 siRNAs targeting HTT1a 192 samples shares hippocampus
- GSE292224 Distinct molecular mechanisms of stress habituation in the mouse hippocampus [bulk RNA-seq] 190 samples shares hippocampus
- GSE306583 Developmental trajectory of the mouse transcriptome following placental allopregnanolone insufficiency in the somatosensosry cortex, hippocampus and cerebellum 175 samples shares hippocampus
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.