Data Card: Septic Shock Day-28 Mortality Biomarker Whole-Blood Microarray Dataset (GSE95233)

Summary

Expression + sample metadata + feature metadata for GSE95233, a microarray study exploring early gene expression modulation in septic shock patients according to day-28 mortality, profiled on the Affymetrix HG-U133 Plus 2.0 Array (GPL570). Candidate prognostic biomarkers identified in the associated study included CX3CR1 and LILRB2.

Source accession

Accession	N (samples)	N (patients)	Platform	Retrieval source
GSE95233	124 (102 septic shock, 22 healthy control)	73 (51 septic shock, 22 healthy control)	Affymetrix HG-U133 Plus 2.0 (GPL570)	NCBI GEO

Septic shock patients were sampled twice: at admission (D01) and a second time at D2 or D3 (never both) — all 51 septic patients have exactly 2 samples, no partial follow-up. Healthy controls were mostly sampled once (18 of 22), but 2 controls unexpectedly have 2 samples each; the reason for this was not resolved (e.g., technical replicate vs. genuine re-draw) and should be checked before treating those 2 controls' samples as independent.

Files

• sample_metadata.parquet — one row per sample: sample_id, patient_id, age, sex, survival (Survivor/Non Survivor/NA for controls), timepoint (D01/D02/D03/NA for controls)
• feature_metadata.parquet — one row per probe (feature_id): annotation from hgu133plus2.db (SYMBOL, ENTREZID, ENSEMBL, GENENAME, UNIPROT)
• expression.parquet — single file, long format: feature_id, sample_id, value

Sample metadata field notes

• sex has an unexplained third level, "H" (4 samples, belonging to 2 patients), alongside the expected F/M. Both "H"-labeled patients have a complete, expected sample pair (D01 + one follow-up), so this appears to be a consistent third category rather than a data artifact — but what "H" denotes is unknown and was not stated in the accession metadata.
• timepoint and survival are NA for all healthy control samples, by design (these variables don't apply to non-septic individuals).
• patient_id distinguishes controls (prefixed "Control") from septic shock patients, and is the correct key for linking a patient's D01 and follow-up samples together.

Expression value processing

Values are RMA-normalized signal intensity, already log2-transformed by the submitter, as deposited. No further transformation applied.

Provenance / reproducibility

See pull_gse95233.R.