Reprogramming Dedifferentiation Regulatory Networks Preserves Human Chondrocyte Phenotypes (RNA-Seq)
RNA-seq (gene expression) · human · 12 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
- 12 samples: 4 × Human chondrocytes P0 Dono vs 4 × Human chondrocytes P3 Dono vs 4 × Human chondrocytes P6 DonoGroups 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 GSE327285_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 PRJNA1416929 and SRA study SRP672282. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 replicated groups read from 12 sample titles; they account for 12 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.
- GSM9652796 Human chondrocytes P0 Donor 1 Human chondrocytes P0 D…
- GSM9652797 Human chondrocytes P3 Donor 1 Human chondrocytes P3 D…
- GSM9652798 Human chondrocytes P6 Donor 1 Human chondrocytes P6 D…
- GSM9652799 Human chondrocytes P0 Donor 2 Human chondrocytes P0 D…
- GSM9652800 Human chondrocytes P3 Donor 2 Human chondrocytes P3 D…
- GSM9652801 Human chondrocytes P6 Donor 2 Human chondrocytes P6 D…
- GSM9652802 Human chondrocytes P0 Donor 3 Human chondrocytes P0 D…
- GSM9652803 Human chondrocytes P3 Donor 3 Human chondrocytes P3 D…
- GSM9652804 Human chondrocytes P6 Donor 3 Human chondrocytes P6 D…
- GSM9652805 Human chondrocytes P0 Donor 4 Human chondrocytes P0 D…
- GSM9652806 Human chondrocytes P3 Donor 4 Human chondrocytes P3 D…
- GSM9652807 Human chondrocytes P6 Donor 4 Human chondrocytes P6 D…
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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.