Host gene expression profiling of fungal (candidemia), bacterial, and viral infection, and non-infectious illness [discovery cohort]
RNA-seq (gene expression) · human · 223 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
- Homo sapiens (human)
- Samples
- 223 samples
- 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 GSE176260_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 PRJNA735653 and SRA study SRP323001. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 223 more — browse all 223 samples with per-sample file links →
- GSE261482 A 5-transcript signature for discriminating viral and bacterial etiology in pediatric pneumonia 177 samples shares bacterial, viral
- GSE294703 High-frequency recurrence index for predicting multiple recurrences in non-muscle-invasive bladder cancer (Discovery cohort) 45 samples shares discovery, cohort
- GSE316780 Human liver-derived organoids recapitulate Oropouche virus infection and manifestation, enabling antiviral drug discovery 32 samples shares discovery, viral
- GSE272710 Macrophage-exacerbated viral lung injury and mechanical overdistension-driven bacterial superinfection replicated in a human lung chip 24 samples shares bacterial, viral
- GSE312997 Macrophage-exacerbated viral lung injury and mechanical overdistension-driven bacterial superinfection replicated in a human lung chip 14 samples shares bacterial, viral
- GSE341837 Integrating Transcriptomics, Mendelian Randomization, Machine Learning, and Experimental Validation to Identify Feature Genes in Sepsis with Thyroid Dysfunction_discovery cohort 13 samples shares discovery, cohort
- GSE25055 Discovery cohort for genomic predictor of response and survival following neoadjuvant taxane-anthracycline chemotherapy in breast cancer 310 samples shares discovery, cohort
- GSE267774 Specific CD4+ T cell phenotypes associate with bacterial control in people who ‘resist’ infection with Mycobacterium tuberculosis 3076 samples shares bacterial
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.