RNA transcriptome sequencing of human ear chondrocytes
RNA-seq (gene expression) · human · 15 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
- 15 samples: 5 conditions, mostly in duplicateGroups 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.
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 GSE243387_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 PRJNA1018233 and SRA study SRP461266. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 5 replicated groups read from 15 sample titles; they account for 10 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.
- GSM7784856 D1-P0 D1-P
- GSM7784857 D1-P5 D1-P
- GSM7784858 D1-XR
- GSM7784859 Z2-P0 Z2-P
- GSM7784860 Z2-P5 Z2-P
- GSM7784861 Z2-XR
- GSM7784862 J3-P0 J3-P
- GSM7784863 J3-P5 J3-P
- GSM7784864 J3-XR
- GSM7784865 L4-P0 L4-P
- GSM7784866 L4-P5 L4-P
- GSM7784867 L4-XR
- GSM7784868 F5-P0 F5-P
- GSM7784869 F5-P5 F5-P
- GSM7784870 F5-XR
- GSE293777 A high-risk osteoarthritis mutation in COL6A3 alters the mechanobiologic response of chondrocytes derived from human induced pluripotent stem cells 84 samples shares chondrocytes
- GSE329742 Mechano-Hypoxia Programs a Coordinated Chondrogenic–Osteochondral Transcriptome in Co-Cultures of Human Nasal Chondrocytes and Bone Marrow–Derived Mesenchymal Stromal Cells 7 samples shares chondrocytes
- GSE291878 High throughput RNA-seq analysis in human primary chondrocytes treated with cyproheptadine and IL-1β 20 samples shares chondrocytes
- GSE261806 Inverse genetics tracing the differentiation pathway of human chondrocytes 10 samples shares chondrocytes
- GSE324566 RNA-seq of human articular chondrocytes after exposure to BMP7-derived peptide p[63-82]. 8 samples shares chondrocytes
- GSE324993 Single-cell RNA sequencing of chondrocytes from osteoarthritis (OA) patients and healthy controls 6 samples shares chondrocytes
- GSE304835 Transcriptomic profiling of DHA-treated human chondrocytes 6 samples shares chondrocytes
- GSE244584 WNK2 regulates the response to hyperosmotic stress in chondrocytes 24 samples shares chondrocytes
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.