Characterizing immune signatures of seasonal coronaviruses HCoV-229E and -OC43 in human nasal airway epithelial cells
RNA-seq (gene expression) · human · 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
- Homo sapiens (human)
- 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
- The antiviral potential of the antiandrogen enzalutamide and the viral-androgen signaling interplay in seasonal coronavirusesJournal of medical virology · 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 GSE238079_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 PRJNA997930 and SRA study SRP451031. 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.
- GSM7658308 A_Mock
- GSM7658309 B_Mock
- GSM7658310 A_229E_24h
- GSM7658311 B_229E_24h
- GSM7658312 A_229E_72h
- GSM7658313 B_229E_72h
- GSM7658314 A_OC43_24h
- GSM7658315 B_OC43_24h
- GSM7658316 A_OC43_72h
- GSM7658317 B_OC43_72h
- GSE328391 Airway immune signatures of protection and disease progression in recent human tuberculosis household contacts [bulk RNA-seq] 125 samples shares signatures, airway
- GSE326212 Airway immune signatures of protection and disease progression in recent human tuberculosis household contacts 17 samples shares signatures, airway
- GSE286042 Transcriptomic and Proteomic Signatures Following AS03-adjuvanted Influenza A/H7N9 Vaccine 1232 samples shares signatures
- GSE86469 Single cell transcriptomics defines human islet cell signatures and reveals cell-type-specific expression changes in type 2 diabetes [single cell] 638 samples shares signatures
- GSE270568 Polyploid cancer cells reveal signatures of chemotherapy relapse [scRNA-seq] 605 samples shares signatures
- GSE287043 Unique Mycobacterium tuberculosis-specific blood immune signatures in sarcoidosis: implications for clinical diagnosis 542 samples shares signatures
- GSE280113 Progenitor effects and unique transcriptomic signatures linked to differentiation phenotype in clonally expanded antigen-specific CD8 T memory stem cells (TSCM) 509 samples shares signatures
- GSE262138 Convergent transcriptomic signatures across brain structures in eating disorders and obsessive compulsive disorder 338 samples shares signatures
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.