Altered lipid homeostasis underlies selective neurodegeneration in SNX14 deficiency [1 yr]
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 10 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.
- Paper
- Altered lipid homeostasis is associated with cerebellar neurodegeneration in SNX14 deficiencyJCI insight · 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 GSE215832_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 PRJNA890682 and SRA study SRP402727. 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 10 sample titles: 10 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.
- GSM6642067 1 year cerebellum from contorl mouse 1 [171HetCB]
- GSM6642068 1 year cerebellum from control mouse 2 [175HetCB]
- GSM6642069 1 year cerebellum from control mouse 3 [474WTCB]
- GSM6642070 1 year cerebellum from KO mouse 1 [174MTCB]
- GSM6642071 1 year cerebellum from KO mouse 2 [177MTCB]
- GSM6642072 1 year cortex from contorl mouse 1 [171HetCX]
- GSM6642073 1 year cortex tissue from control mouse 2 [175HetCX]
- GSM6642074 1 year cortex tissue from control mouse 3 [474WTCX]
- GSM6642075 1 year cortex tissue from KO mouse 1 [174MTCX]
- GSM6642076 1 year cortex tissue from KO mouse 2 [177MTCX]
- GSE328769 Alzheimer's disease associated Presenilin 2 N141I mutation impairs neuronal lipid homeostasis and mitochondrial dynamics through selective downregulation of the Golgi exchange factor Gbf1 16 samples shares homeostasis, selective, lipid
- GSE283571 Circadian reprogramming of protein homeostasis and glycolipid metabolism in diabetic nephropathy 47 samples shares homeostasis, lipid
- GSE281823 Transcriptional profiling of striatum from the Q140 mouse model of Huntington's disease, from A rare genetic variant confers resistance to neurodegeneration across multiple neurological disorders by augmenting selective autophagy 40 samples shares neurodegeneration, selective
- GSE326648 Sexual dimorphism shapes AAK trajectory in Pax6 deficiency mouse model with early immune activation, impaired innervation, and altered tears 40 samples shares deficiency, altered
- GSE238201 Loss of PPARα function promotes epigenetic dysregulation of lipid homeostasis driving ferroptosis and pyroptosis lipotoxicity in Metabolic Dysfunction Associated Steatotic Liver Disease (MASLD) [RNA-seq] 12 samples shares homeostasis, lipid
- GSE304566 Combinatorial targeting of the miR-379/miR-410 cluster normalizes glucose and lipid homeostasis in male models of diabetes and obesity 11 samples shares homeostasis, lipid
- GSE218073 Membrane phospholipid remodeling modulates nonalcoholic steatohepatitis progression by regulating mitochondrial homeostasis [LKO_NASH] 10 samples shares homeostasis, lipid
- GSE254229 ALS/FTD-linked TBK1 deficiency in microglia induces an aged-like microglial signature and drives social recognition deficits in mice 141 samples shares deficiency
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.