Involvement of autophagy in mesaconitine-induced neurotoxicity in HT22 cells revealed through integrated transcriptomic, proteomic, and m6A epitranscriptomic profiling
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: 12 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
- Involvement of autophagy in mesaconitine-induced neurotoxicity in HT22 cells revealed through integrated transcriptomic, proteomic, and m6A epitranscriptomic profilingFrontiers in pharmacology · 2024
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 GSE261320_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 PRJNA1086484 and SRA study SRP494548. 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 12 sample titles: 12 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.
- GSM8140487 Me_1_IP
- GSM8140488 Me_2_IP
- GSM8140489 Me_3_IP
- GSM8140490 Me_1_input
- GSM8140491 Me_2_input
- GSM8140492 Me_3_input
- GSM8140493 Con_1_IP
- GSM8140494 Con_2_IP
- GSM8140495 Con_3_IP
- GSM8140496 Con_1_input
- GSM8140497 Con_2_input
- GSM8140498 Con_3_input
- GSE328636 RNA-seq Analysis of the 5-HT2B Receptor Agonist BW723C86 on OGD-induced HT22 Cells in a Transwell Co-culture System with BMDMs 6 samples shares ht22
- GSE268702 Effect of MEIS2 overexpression on HT22 cells 4 samples shares ht22
- GSE286507 Transcriptomic analysis of RNA (mRNA/ lncRNA/ circRNA) expression and epitranscriptomic profiling of N4-acetylcytidine-related RNA (mRNA/ lncRNA/ circRNA) acetylation in renal cortex from mice with ischemia reperfusion injury 12 samples shares epitranscriptomic
- GSE299269 Haptoglobin and Hemopexin Redirect Heme-Driven Oxidative Stress and Neurotoxicity in Organotypic Brain Slices 188 samples shares neurotoxicity
- GSE216620 Gut microbiota dysbiosis rewires host mRNA m6A epitranscriptomic landscape via bile acid metabolism 102 samples shares epitranscriptomic
- GSE242684 Insights into Brominated Flame Retardant Neurotoxicity: Mechanisms of Hippocampal Neural Cell Death and Brain Region-Specific Transcriptomic Shifts in Mice 76 samples shares neurotoxicity
- GSE284224 Epitranscriptomic program promotes skeletal stem cell quiescence and pluripotency by regulating proteostasis via METTL3-FEM1B-GLI1 axis 44 samples shares epitranscriptomic
- GSE300519 Neurotoxicity, α-Synuclein Pathology, and Mitochondrial Dysfunction: A Comparative Study of Three Parkinson’s Disease Mouse Models 35 samples shares neurotoxicity
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.