GEO series
Haptoglobin and Hemopexin Redirect Heme-Driven Oxidative Stress and Neurotoxicity in Organotypic Brain Slices
GSE299269
Mus musculus (mouse)
RNA-seq (gene expression)
188 samples
Submitted 2025/12/29
Platform GPL24247Platform GPL34290
At a glance
RNA-seq (gene expression) · mouse · 188 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
- 188 samples: 19 conditions, mostly with about 9 replicates eachGroups 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
- Haptoglobin and Hemopexin Redirect Heme-Driven Oxidative Stress and Neurotoxicity in Organotypic Brain SlicesACS chemical neuroscience · 2026
Summary (written by the submitters)
The mechanistic links between hemoglobin oxidation, heme release, and neuronal death after intracerebral hemorrhage are incompletely defined. Using organotypic brain-slice cultures (BSCs) that model the RBC-toxin cascade, we dissect how the scavenger proteins haptoglobin (Hp) and hemopexin (Hpx) interrupt this pathology. BSCs exposed to free hemoglobin, heme, or their complexes (HbHp, hemeHpx) reveal that both Hb and heme drive iron-dependent neuronal injury, while Hp and Hpx confer protection by distinct mechanisms.
Read the full summary ↓
Multi-modal readouts – including iron quantification, lipid peroxidation, neuronal apoptosis, and RNA-seq – demonstrate that Hpx abolishes toxicity by sequestering heme, whereas Hp stabilizes Hb and enables Nrf2-dependent cytoprotective gene expression. These data quantitatively map how Hp and Hpx reroute hemolytic toxicity toward resilience.
Published in
Stalder AT, Buzzi RM, Vallelian F et al.
· ACS chemical neuroscience 2026
· PMID 41416820
· doi:10.1021/acschemneuro.5c00511
This dataset
Download · which file do I need?
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.
1 · Just have a look
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.
2 · Re-analyse it
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE299269_RAW.tar (it can run to tens of gigabytes).
3 · Start from the raw reads
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 PRJNA1273729 and SRA study SRP590806. Searching any of these in the dataset finder brings you back here.
Study design
19 conditions, mostly with about 9 replicates each
BSC, control (0 µM, 24 h), ×20
BSC, stimulated with haptoglobin (400 µM) for… ×11
BSC, stimulated with haptoglobin (400 µM) for… ×10
BSC, stimulated with heme-albumin (12.5 µM) f… ×9
BSC, stimulated with heme-albumin (50 µM) for… ×9
BSC, stimulated with heme-albumin (200 µM) fo… ×9
BSC, stimulated with heme-albumin (400 µM) fo… ×9
BSC, stimulated with heme-haptoglobin (200 µM… ×9
+30 more
Supports a case/control comparison: 158 samples read as cases, 30 as controls.
How we read this: 19 replicated groups read from 188 sample titles; they account for 169 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.
Samples in this study
- GSM9036274 BSC, control (0 µM, 24 h), rep12 BSC, control (0 µM, 24 …
- GSM9036275 BSC, stimulated with heme-albumin (12.5 µM) for 24 h
- GSM9036276 BSC, stimulated with heme-albumin (50 µM) for 24 h
- GSM9036277 BSC, stimulated with heme-albumin (200 µM) for 24 h
- GSM9036278 BSC, stimulated with heme-albumin (400 µM) for 24 h
- GSM9036279 BSC, stimulated with heme-haptoglobin (200 µM) for 24 h
- GSM9036280 BSC, control (0 µM, 24 h), rep13 BSC, control (0 µM, 24 …
- GSM9036281 BSC, stimulated with heme-albumin (12.5 µM) for 24 h, rep2 BSC, stimulated with he…
- GSM9036282 BSC, stimulated with heme-albumin (50 µM) for 24 h, rep2 BSC, stimulated with he…
- GSM9036283 BSC, stimulated with heme-albumin (200 µM) for 24 h, rep2 BSC, stimulated with he…
- GSM9036284 BSC, stimulated with heme-albumin (400 µM) for 24 h, rep2 BSC, stimulated with he…
- GSM9036285 BSC, stimulated with heme-haptoglobin (200 µM) for 24 h, rep2 BSC, stimulated with he…
- GSM9036286 BSC, control (0 µM, 24 h), rep14 BSC, control (0 µM, 24 …
- GSM9036287 BSC, stimulated with heme-albumin (12.5 µM) for 24 h, rep3 BSC, stimulated with he…
- GSM9036288 BSC, stimulated with heme-albumin (50 µM) for 24 h, rep3 BSC, stimulated with he…
- GSM9036289 BSC, stimulated with heme-albumin (200 µM) for 24 h, rep3 BSC, stimulated with he…
- GSM9036290 BSC, stimulated with heme-albumin (400 µM) for 24 h, rep3 BSC, stimulated with he…
- GSM9036291 BSC, stimulated with heme-haptoglobin (200 µM) for 24 h, rep3 BSC, stimulated with he…
- GSM9036292 BSC, control (0 µM, 24 h), rep15 BSC, control (0 µM, 24 …
- GSM9036293 BSC, stimulated with heme-albumin (12.5 µM) for 24 h, rep4 BSC, stimulated with he…
- GSM9036294 BSC, stimulated with heme-albumin (50 µM) for 24 h, rep4 BSC, stimulated with he…
- GSM9036295 BSC, stimulated with heme-albumin (200 µM) for 24 h, rep4 BSC, stimulated with he…
- GSM9036296 BSC, stimulated with heme-albumin (400 µM) for 24 h, rep4 BSC, stimulated with he…
- GSM9036297 BSC, stimulated with heme-haptoglobin (200 µM) for 24 h, rep4 BSC, stimulated with he…
- GSM9036298 BSC, control (0 µM, 24 h), rep16 BSC, control (0 µM, 24 …
- GSM9036299 BSC, stimulated with heme-albumin (12.5 µM) for 24 h, rep5 BSC, stimulated with he…
- GSM9036300 BSC, stimulated with heme-albumin (50 µM) for 24 h, rep5 BSC, stimulated with he…
- GSM9036301 BSC, stimulated with heme-albumin (200 µM) for 24 h, rep5 BSC, stimulated with he…
- GSM9036302 BSC, stimulated with heme-albumin (400 µM) for 24 h, rep5 BSC, stimulated with he…
- GSM9036303 BSC, stimulated with heme-haptoglobin (200 µM) for 24 h, rep5 BSC, stimulated with he…
- GSM9036304 BSC, control (0 µM, 24 h), rep17 BSC, control (0 µM, 24 …
- GSM9036305 BSC, stimulated with heme-albumin (12.5 µM) for 24 h, rep6 BSC, stimulated with he…
- GSM9036306 BSC, stimulated with heme-albumin (50 µM) for 24 h, rep6 BSC, stimulated with he…
- GSM9036307 BSC, stimulated with heme-albumin (200 µM) for 24 h, rep6 BSC, stimulated with he…
- GSM9036308 BSC, stimulated with heme-albumin (400 µM) for 24 h, rep6 BSC, stimulated with he…
- GSM9036309 BSC, stimulated with heme-haptoglobin (200 µM) for 24 h, rep6 BSC, stimulated with he…
- GSM9036310 BSC, control (0 µM, 24 h), rep18 BSC, control (0 µM, 24 …
- GSM9036311 BSC, control (0 µM, 24 h), rep19 BSC, control (0 µM, 24 …
- GSM9036312 BSC, stimulated with heme-albumin (12.5 µM) for 24 h, rep7 BSC, stimulated with he…
- GSM9036313 BSC, stimulated with heme-albumin (50 µM) for 24 h, rep7 BSC, stimulated with he…
+ 148 more — browse all 188 samples with per-sample file links →
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