Omics analyses of stromal cells from ACM patients reveal alterations in chromatin organization and mitochondrial homeostasis [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: 6 × ACM vs 6 × HCGroups 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
- Omics Analyses of Stromal Cells from ACM Patients Reveal Alterations in Chromatin Organization and Mitochondrial HomeostasisInternational journal of molecular sciences · 2023
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 GSE233780_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 PRJNA977971 and SRA study SRP440334. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 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.
- GSM7434733 ACM.1 ACM
- GSM7434734 ACM.2 ACM
- GSM7434735 ACM.3 ACM
- GSM7434736 ACM.4 ACM
- GSM7434737 ACM.5 ACM
- GSM7434738 ACM.6 ACM
- GSM7434739 HC.1 HC
- GSM7434740 HC.2 HC
- GSM7434741 HC.3 HC
- GSM7434742 HC.4 HC
- GSM7434743 HC.5 HC
- GSM7434744 HC.6 HC
- GSE271127 Substained DNA demethylation and discordant chromatin accessibility dynamics define enhancer regulation during neural progenitor cell differentiation [ATACme] 18 samples shares acm, chromatin
- GSE279133 MYC plus class IIa HDAC inhibiton potentiates mitochondrial dysfunction in non-small cell lung cancer [RNA-seq] 64 samples shares mitochondrial, rna-seq
- GSE300791 Enhancer Dynamics and Spatial Organization Drive Anatomically Restricted Cellular States in the Human Spinal Cord [scRNA-seq] 20 samples shares organization, rna-seq
- GSE297335 ABHD18 is essential for cardiolipin remodeling and its inhibition restores mitochondrial function in Barth Syndrome [RNA-Seq] 18 samples shares mitochondrial, rna-seq
- GSE319937 Mitochondrial metabolism and epigenetic crosstalk drive the SASP (RNA-Seq_2) 18 samples shares mitochondrial, rna-seq
- GSE214138 Spatially resolved multi-omic profiling of human hippocampus reveals region-specific alterations in major depressive disorder [RNA-seq] 13 samples shares alterations, rna-seq
- GSE342354 Time-series RNA-seq of U2OS cells following CCCP-induced mitochondrial damage and recovery upon drug washout 12 samples shares mitochondrial, rna-seq
- GSE294458 Single-Cell RNA-Seq uncovers lineage-specific regulatory alterations of fibroblasts and endothelial cells in ligamentum flavum hypertrophy 2 samples shares alterations, 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.