Integrative Analysis of Genome-Wide Epigenetic and Transcriptomic Alterations Reveals Molecular Markers for Diagnosing Pediatric Obstructive Sleep Apnea in Black Females [RNA-Seq]
RNA-seq (gene expression) · human · 19 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
- 19 samples: 19 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
- Genome-wide epigenetic profiling and transcriptome analysis in pediatric Obstructive Sleep Apnea: A focus on Black female childrenHeliyon · 2024
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 GSE237281_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 PRJNA994523 and SRA study SRP449460. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 9 samples read as cases, 10 as controls.
How we read this: Read from 19 sample titles: 19 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.
- GSM7601203 EPIA01RNA_Patient_OSA
- GSM7601204 EPIA02RNA_Patient_OSA
- GSM7601205 EPIA03RNA_Patient_OSA
- GSM7601207 EPIA04RNA_Patient_OSA
- GSM7601208 EPIA05RNA_Patient_OSA
- GSM7601209 EPIA06RNA_Patient_OSA
- GSM7601210 EPIA07RNA_Patient_OSA
- GSM7601212 EPIA08RNA_Patient_OSA
- GSM7601213 EPIA09RNA_Patient_OSA
- GSM7601214 EPIC01RNA_Healthy_Control
- GSM7601216 EPIC02RNA_Healthy_Control
- GSM7601217 EPIC03RNA_Healthy_Control
- GSM7601218 EPIC04RNA_Healthy_Control
- GSM7601219 EPIC05RNA_Healthy_Control
- GSM7601221 EPIC06RNA_Healthy_Control
- GSM7601222 EPIC07RNA_Healthy_Control
- GSM7601223 EPIC08RNA_Healthy_Control
- GSM7601224 EPIC09RNA_Healthy_Control
- GSM7601226 EPIC10RNA_Healthy_Control
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares genome-wide, epigenetic
- GSE303855 Mechanistic and Epigenetic Partitioning of Lamina-Associated Chromatin Revealed by a Genome-Wide Imaging Screen 45 samples shares genome-wide, epigenetic
- GSE277909 Epigenetic attenuation of interferon signaling drives aging-related improvements in systemic lupus 271 samples shares epigenetic
- GSE234181 Long-term multi-modal recording reveals epigenetic adaptation routes in dormant breast cancer cells [scRNA-Seq] 184 samples shares epigenetic
- GSE310058 Single-nucleus transcriptomic profiling of human lung tissue in chronic obstructive pulmonary disease (COPD) [snRNA-seq] 149 samples shares obstructive
- GSE281303 Multimodal Genome-wide Survey of Progressing and Non-progressing Breast Ductal Carcinoma In-Situ [RNA-seq] 123 samples shares genome-wide
- GSE269335 Single-cell multimodal profiling of monocytes reveals diverse phenotypes and alterations linked to cardiovascular disease risks 118 samples shares alterations
- GSE232076 In vitro reconstitution of epigenetic reprogramming in the human germ line [RNA-Seq] 89 samples shares epigenetic
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.