A molecular pathway for cancer cachexia-induced muscle atrophy revealed at single nucleus resolution [Bulk_RNAseq]
Single-nucleus RNA-seq · mouse · 31 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Mus musculus (mouse)
- Samples
- 31 samples: 25 distinct titles, 3 of them repeatedGroups 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
- A molecular pathway for cancer cachexia-induced muscle atrophy revealed at single-nucleus resolutionCell reports · 2024
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 GSE272083_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1135087 and SRA study SRP519530. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 31 sample titles: 25 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.
- GSM8392694 hindlimb muscle from pooled control mice 1, E15.5 age
- GSM8392695 hindlimb muscle from pooled control mice 2, E15.5 age
- GSM8392696 hindlimb muscle from pooled control mice 3, E15.5 age
- GSM8392697 hindlimb muscle from control mouse 1, E17.5 age
- GSM8392698 hindlimb muscle from control mouse 2, E17.5 age
- GSM8392699 hindlimb muscle from control mouse 3, E17.5 age
- GSM8392700 hindlimb muscle from control mouse 1, postnatal day 1
- GSM8392701 hindlimb muscle from control mouse 2, postnatal day 2
- GSM8392702 hindlimb muscle from control mouse 3, postnatal day 3
- GSM8392703 hindlimb muscle from control mouse 1, 8 months
- GSM8392704 hindlimb muscle from control mouse 2, 8 months
- GSM8392705 hindlimb muscle from control mouse 3, 8 months
- GSM8392706 GP muscle from control mouse 1 uninjected
- GSM8392707 GP muscle from control mouse 1 shMyog
- GSM8392708 GP muscle from control mouse 2 uninjected
- GSM8392709 GP muscle from control mouse 2 shMyog
- GSM8392710 GP muscle from control mouse 3 uninjected
- GSM8392711 GP muscle from control mouse 3 shMyog
- GSM8392712 GP muscle from KIC mouse 1 uninjected
- GSM8392713 GP muscle from KIC mouse 1 shMyog
- GSM8392714 GP muscle from KIC mouse 2 uninjected
- GSM8392715 GP muscle from KIC mouse 2 shMyog
- GSM8392716 GP muscle from control mouse 1
- GSM8392717 GP muscle from control mouse 2
- GSM8392718 GP muscle from control mouse 3
- GSM8392719 GP muscle from KIC mouse 1
- GSM8392720 GP muscle from KIC mouse 2
- GSM8392721 GP muscle from KIC mouse 3
- GSM8392722 GP muscle from 48 hour fasted mouse 1
- GSM8392723 GP muscle from 48 hour fasted mouse 2
- GSM8392724 GP muscle from 48 hour fasted mouse 3
- GSE263902 The translational landscape of mouse oocytes and preimplantation embryos revealed by high-resolution ribosome profiling 272 samples shares resolution, revealed
- GSE297572 Innate immune responses between low DIPs and high DIPs LAIV inoculations in the mouse upper respiratory tract revealed by bulk RNA-seq 22 samples shares revealed, bulk
- GSE275001 Methionine cycle dysregulation mediates REDD1 overexpression-induced muscle atrophy in cancer cachexia 12 samples shares atrophy, muscle
- GSE285318 Elevated levels of S100A8 and S100A9 exacerbate muscle mitochondrial fragmentation in sepsis-induced muscle atrophy 12 samples shares atrophy, muscle
- GSE294765 A skeletal muscle atlas shows neuromuscular junction adaptations to growth and atrophy 35 samples shares atrophy, muscle
- GSE307419 Pulmonary fibroblast subsets demonstrate differentially enriched signaling pathways during fibrosis resolution and repair 26 samples shares resolution
- GSE235809 Resolution of acinar dedifferentiation regulates tissue remodeling in pancreatic injury and cancer initiation. 17 samples shares resolution
- GSE264607 Molecular targets of colorectal cancer transformation revealed by single-cell sequencing 14 samples shares revealed
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.