Simulated microgravity recapitulates early molecular events and sex differences of knee osteoarthritis
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: 6 conditions, mostly with about 4 replicates eachGroups 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
- Short-term response of primary human meniscus cells to simulated microgravityCell communication and signaling : CCS · 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 GSE231848_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 PRJNA968022 and SRA study SRP436277. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 6 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.
- GSM7304990 Male, Donor1, Day0 Male, Donor1, Day
- GSM7304991 Male, Donor1, Day1 Male, Donor1, Day
- GSM7304992 Male, Donor1, Day3 Male, Donor1, Day
- GSM7304993 Male, Donor1, Day7 Male, Donor1, Day
- GSM7304994 Male, Donor2, Day0 Male, Donor2, Day
- GSM7304995 Male, Donor2, Day1 Male, Donor2, Day
- GSM7304996 Male, Donor2, Day3 Male, Donor2, Day
- GSM7304997 Male, Donor2, Day7 Male, Donor2, Day
- GSM7304998 Female, Donor1, Day0 Female, Donor1, Day
- GSM7304999 Female, Donor1, Day1 Female, Donor1, Day
- GSM7305000 Female, Donor1, Day3 Female, Donor1, Day
- GSM7305001 Female, Donor1, Day7 Female, Donor1, Day
- GSM7305002 Male, Donor3, Day0 Male, Donor3, Day
- GSM7305003 Male, Donor3, Day1 Male, Donor3, Day
- GSM7305004 Male, Donor3, Day3 Male, Donor3, Day
- GSM7305005 Male, Donor3, Day7 Male, Donor3, Day
- GSM7305006 Female, Donor2, Day0 Female, Donor2, Day
- GSM7305007 Female, Donor2, Day1 Female, Donor2, Day
- GSM7305008 Female, Donor2, Day3 Female, Donor2, Day
- GSM7305009 Female, Donor2, Day7 Female, Donor2, Day
- GSM7305010 Female, Donor3, Day0 Female, Donor3, Day
- GSM7305011 Female, Donor3, Day1 Female, Donor3, Day
- GSM7305012 Female, Donor3, Day3 Female, Donor3, Day
- GSM7305013 Female, Donor3, Day7 Female, Donor3, Day
- GSE293398 Sex-related differences in gene expression in early-stage bladder cancer revealed by whole-transcriptome sequencing 186 samples shares differences, early
- GSE251663 Ancestry and fetal sex differences in human placental transcriptome in spontaneous early preterm birth 118 samples shares differences, early
- GSE274018 Single-cell Transcriptome and Crosstalk Analysis Reveals Immune Alterations and Key Pathways in the Bone Marrow of Knee Osteoarthritis Patients 77 samples shares osteoarthritis, knee
- GSE301964 T Cell Transcriptome Alterations in Healthy Volunteers Exposed to Three Weeks of Simulated Microgravity 50 samples shares microgravity, simulated
- GSE283079 Bulk RNA-seq of human knee osteoarthritis synovium 41 samples shares osteoarthritis, knee
- GSE248366 Simulated Lunar Microgravity Transiently Arrests Growth and Induces Osteocyte-Chondrocyte Lineage Differentiation in Human Wharton’s jelly stem cells. 26 samples shares microgravity, simulated
- GSE253198 Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis [snRNA-seq] 21 samples shares osteoarthritis, knee
- GSE279915 Complexity of synovial fluid-derived monocyte–macrophage lineage cells in knee osteoarthritis 12 samples shares osteoarthritis, knee
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.