X-chromosome upregulation operates on a gene-by-gene basis at RNA and protein levels [RNA-seq]
RNA-seq (gene expression) · mouse · 30 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
- Mus musculus (mouse)
- Samples
- 30 samples: 13 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.
- Paper
- X-chromosome upregulation operates on a gene-by-gene basis at RNA and protein levelsNature communications · 2025
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 GSE282784_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 PRJNA1190421 and SRA study SRP547554. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 26 samples.
How we read this: 13 replicated groups read from 30 sample titles; they account for 26 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.
- GSM8650584 XX Wildtype.1 XX Wildtype
- GSM8650585 XX Wildtype.2 XX Wildtype
- GSM8650586 XX Rnf12.1 XX Rnf12
- GSM8650587 XX Rnf12.2 XX Rnf12
- GSM8650588 XO XCastO129.1 XO XCastO129
- GSM8650589 XO XCastO129.2 XO XCastO129
- GSM8650590 XO X129OCast.1 XO X129OCast
- GSM8650591 XO X129OCast.2 XO X129OCast
- GSM8650592 Deletion A
- GSM8650593 Deletion B
- GSM8650594 Deletion AB
- GSM8650595 Deletion C.1 Deletion C
- GSM8650596 Deletion C.2 Deletion C
- GSM8650597 Deletion C-G
- GSM8650598 Deletion D.1 Deletion D
- GSM8650599 Deletion D.2 Deletion D
- GSM8650600 Deletion E.1 Deletion E
- GSM8650601 Deletion E.2 Deletion E
- GSM8650602 Deletion F.1 Deletion F
- GSM8650603 Deletion F.2 Deletion F
- GSM8650604 Deletion H.1 Deletion H
- GSM8650605 Deletion H.2 Deletion H
- GSM8650606 Deletion I.1 Deletion I
- GSM8650607 Deletion I.2 Deletion I
- GSM8650608 Deletion I-TEL.1 Deletion I-TEL
- GSM8650609 Deletion I-TEL.2 Deletion I-TEL
- GSM8650610 Deletion J.1 Deletion J
- GSM8650611 Deletion J.2 Deletion J
- GSM8650612 Deletion K.1 Deletion K
- GSM8650613 Deletion K.2 Deletion K
- GSE282792 X-chromosome upregulation operates on a gene-by-gene basis at RNA and protein levels 35 samples shares x-chromosome, upregulation, gene-by-gene, operates, protein, levels, basis
- GSE282785 X-chromosome upregulation operates on a gene-by-gene basis at RNA and protein levels [ChIP-seq] 4 samples shares x-chromosome, upregulation, gene-by-gene, operates, protein, levels, basis
- GSE254996 ACSS2 upregulation enhances neuronal resilience to aging and neurodegeneration [RNA-seq] 98 samples shares upregulation, rna-seq
- GSE245605 WWOX promotes osteosarcoma development via upregulation of Myc [RNA-Seq] 37 samples shares upregulation, rna-seq
- GSE171815 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (RNA-seq - mus musculus) 27 samples shares operates, rna-seq
- GSE236245 RNA-seq: The Interferon γ Pathway Enhances Pluripotency and X-Chromosome Reactivation in iPSC Reprogramming 24 samples shares x-chromosome, rna-seq
- GSE279278 KDM6A facilitates Xist upregulation at the onset of X inactivation [RNA-Seq] 18 samples shares upregulation, rna-seq
- GSE237287 Loss of Kmt2c or Kmt2d drives brain metastasis via KDM6A-dependent upregulation of MMP3 [RNA-seq] 18 samples shares upregulation, rna-seq
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.