Transcriptomic analyses of mortality in HIV-associated Pneumocystis pneumonia
RNA-seq (gene expression) · human · 24 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
- 24 samples: 24 × PCP PatientGroups 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.
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 GSE320199_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 PRJNA1427134 and SRA study SRP678743. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 1 replicated groups read from 24 sample titles; they account for 24 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.
- GSM9537140 PCP Patient_008 PCP Patient
- GSM9537141 PCP Patient_009 PCP Patient
- GSM9537142 PCP Patient_011 PCP Patient
- GSM9537143 PCP Patient_012 PCP Patient
- GSM9537144 PCP Patient_013 PCP Patient
- GSM9537145 PCP Patient_014 PCP Patient
- GSM9537146 PCP Patient_015 PCP Patient
- GSM9537147 PCP Patient_016 PCP Patient
- GSM9537148 PCP Patient_017 PCP Patient
- GSM9537149 PCP Patient_018 PCP Patient
- GSM9537150 PCP Patient_019 PCP Patient
- GSM9537151 PCP Patient_020 PCP Patient
- GSM9537152 PCP Patient_021 PCP Patient
- GSM9537153 PCP Patient_026 PCP Patient
- GSM9537154 PCP Patient_027 PCP Patient
- GSM9537155 PCP Patient_028 PCP Patient
- GSM9537156 PCP Patient_029 PCP Patient
- GSM9537157 PCP Patient_031 PCP Patient
- GSM9537158 PCP Patient_032 PCP Patient
- GSM9537159 PCP Patient_033 PCP Patient
- GSM9537160 PCP Patient_034 PCP Patient
- GSM9537161 PCP Patient_035 PCP Patient
- GSM9537162 PCP Patient_036 PCP Patient
- GSM9537163 PCP Patient_037 PCP Patient
- GSE261482 A 5-transcript signature for discriminating viral and bacterial etiology in pediatric pneumonia 177 samples shares pneumonia
- GSE274269 Distinct patterns of metagenomic surveillance and respiratory microbiota between two P1 genotypes of Mycoplasma pneumoniae 174 samples shares pneumonia
- GSE330843 The CRAC channel inhibitor Auxora interrupts inflammatory circuits between alveolar macrophages and T cells in patients with viral pneumonia 88 samples shares pneumonia
- GSE262621 Gene expression profiling of HIV-associated diffuse large B-cell lymphomas from Malawi 70 samples shares hiv-associated
- GSE246795 Microbial Dynamics and Pulmonary Immune Responses in COVID-19 Secondary Bacterial Pneumonia 56 samples shares pneumonia
- GSE210433 TET2 Mutant Clonal Hematopoiesis Enhances Severity of COVID-19 Related Cytokine Release Syndrome and is Associated with Increased Mortality [scRNA-seq] 34 samples shares mortality
- GSE319215 Monocytes defined by platelet interactions and oxidative stress signaling underlie HIV-associated atherosclerosis 30 samples shares hiv-associated
- GSE228541 Integrated analysis of messenger RNA and microRNA in patients with community-acquired pneumonia associated sepsis (mRNA part) 29 samples shares pneumonia
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.